Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009459.1 Hibiscus syriacus cultivar Beakdansim tig00113721_pilon, whole genome shotgun sequence
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: 1147073
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 4 of 4
Found at i:945716 original size:22 final size:22
Alignment explanation
Indices: 945660--945705 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
945650 AAAGCAAAAA
945660 AGAAAATGAGGTTTTGTTTTTT
1 AGAAAATGAGGTTTTGTTTTTT
945682 AGAAAATGAGGTTTTGTTTTTT
1 AGAAAATGAGGTTTTGTTTTTT
945704 AG
1 AG
945706 TTAATGGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (22 bp):
AGAAAATGAGGTTTTGTTTTTT
Found at i:946264 original size:121 final size:121
Alignment explanation
Indices: 946029--946373 Score: 505
Period size: 121 Copynumber: 2.9 Consensus size: 121
946019 GTCGATCCAT
* * * *
946029 TGGGCACGATATACTT-CGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTCATGAAGTTGAGC
1 TGGGCACAATAT-CTTCCGTCATGAAGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTTGAGC
* * * *
946093 CTCGAATTGGATATCCTTCGTCGTTAAGTTAAAATCCAAGGGTTGCATTGCTGCTTG
65 CTCGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTCCTTA
* * * *
946150 TGGGTACAATATCTTCCGTCATGAAGTTGAAATTGTGGATGGCCCTTTCGTCGTGAAGTTAAGCC
1 TGGGCACAATATCTTCCGTCATGAAGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTTGAGCC
*
946215 TCGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTCCTTA
66 TCGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTCCTTA
* * *
946271 TGGGCACGATATCCTCCGTCA-CAGAGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTTGAGC
1 TGGGCACAATATCTTCCGTCATGA-AGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTTGAGC
*
946335 CTCGAATTAGATATCCTTCGTCGTGAAGTTGAAATCCAA
65 CTCGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAA
946374 TCTAAAGATG
Statistics
Matches: 201, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
120 4 0.02
121 197 0.98
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (121 bp):
TGGGCACAATATCTTCCGTCATGAAGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTTGAGCC
TCGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTCCTTA
Found at i:946485 original size:34 final size:34
Alignment explanation
Indices: 946447--946556 Score: 109
Period size: 34 Copynumber: 3.3 Consensus size: 34
946437 CCCCTCCGTT
*
946447 GTGAAGTTGAGCCTTAAATTGGATATCCTTCGTC
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTC
* * * ** * *
946481 GTGAAGTTGAAACCGTGGA-TGG--CCCCTCCGTT
1 GTGAAGTTG-AGCCTTGAATTGGATATCCTTCGTC
*
946513 GTGAAGTCGAGCCTTGAATTGGATATCCTTCGTC
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTC
946547 GTGAAGTTGA
1 GTGAAGTTGA
946557 AATTAAATCT
Statistics
Matches: 55, Mismatches: 17, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
31 6 0.11
32 17 0.31
34 27 0.49
35 5 0.09
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (34 bp):
GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTC
Found at i:946516 original size:66 final size:66
Alignment explanation
Indices: 946424--946558 Score: 252
Period size: 66 Copynumber: 2.0 Consensus size: 66
946414 CATAAAGGTA
*
946424 AAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTAAATTGGATATCCTTCGTCGTGAAGTT
1 AAACCGTGGATGGCCCCTCCGTTGTGAAGTCGAGCCTTAAATTGGATATCCTTCGTCGTGAAGTT
946489 G
66 G
*
946490 AAACCGTGGATGGCCCCTCCGTTGTGAAGTCGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTT
1 AAACCGTGGATGGCCCCTCCGTTGTGAAGTCGAGCCTTAAATTGGATATCCTTCGTCGTGAAGTT
946555 G
66 G
946556 AAA
1 AAA
946559 TTAAATCTAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (66 bp):
AAACCGTGGATGGCCCCTCCGTTGTGAAGTCGAGCCTTAAATTGGATATCCTTCGTCGTGAAGTT
G
Found at i:946612 original size:124 final size:124
Alignment explanation
Indices: 946473--946932 Score: 769
Period size: 124 Copynumber: 3.7 Consensus size: 124
946463 AATTGGATAT
* *
946473 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTCGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAATTGGATA
** * *
946538 TCCTTCGTCGTGAAGTTGAAATTAAATCTAAAGATAAATGTTGCTGGTGAGCACGATTC
66 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGATGGTGAGCACGATTC
946597 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAATTGGATA
*
946662 TCCTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATGTTGATGGTGAGCACGATTC
66 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGATGGTGAGCACGATTC
*
946721 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAATTGGATA
* *
946786 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTAATGGTGATCACGATTC
66 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGATGGTGAGCACGATTC
* ** * *
946845 CCTTCGTCGTGAATTTGAAACCGTGGATGGCCCATTTGTTGTGAAGTTGAGTCTT-AACTTGAAT
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAA-TTGGAT
946909 ATCCTTCGTCGTGAAGTTGAAATC
65 ATCCTTCGTCGTGAAGTTGAAATC
946933 AAAGCTTGTA
Statistics
Matches: 318, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
123 2 0.01
124 316 0.99
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (124 bp):
CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAATTGGATA
TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGATGGTGAGCACGATTC
Found at i:946620 original size:190 final size:190
Alignment explanation
Indices: 946278--946682 Score: 596
Period size: 190 Copynumber: 2.1 Consensus size: 190
946268 TTATGGGCAC
* * * * *
946278 GATATCCTCCGTCA-CAGAGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTTGAGCCTCGAAT
1 GATATCCTTCGTCATGA-AGTTGAAACCGTGGATGGCCCATCCGTCGTGAAGTCGAGCCTCGAAT
* * *
946342 TAGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGTTGGTGAGCACAATTC
65 TAGATATCCTTCGTCGTGAAGTTGAAATCAAATCTAAAGATAAATGTTGCTGGTGAGCACAATTC
*
946407 CCATCGTCATAAAGGTAAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTAAATTG
130 CCATCGTCATAAAGGTAAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTAAATTG
* * * *
946468 GATATCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTCGAGCCTTGAATT
1 GATATCCTTCGTCATGAAGTTGAAACCGTGGATGGCCCATCCGTCGTGAAGTCGAGCCTCGAATT
* * *
946533 GGATATCCTTCGTCGTGAAGTTGAAATTAAATCTAAAGATAAATGTTGCTGGTGAGCACGATTCC
66 AGATATCCTTCGTCGTGAAGTTGAAATCAAATCTAAAGATAAATGTTGCTGGTGAGCACAATTCC
* * * * * *
946598 CTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAATTG
131 CATCGTCATAAAGGTAAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTAAATTG
946658 GATATCCTTCGTCATGAAGTTGAAA
1 GATATCCTTCGTCATGAAGTTGAAA
946683 TCCAATCTAA
Statistics
Matches: 191, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
190 190 0.99
191 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (190 bp):
GATATCCTTCGTCATGAAGTTGAAACCGTGGATGGCCCATCCGTCGTGAAGTCGAGCCTCGAATT
AGATATCCTTCGTCGTGAAGTTGAAATCAAATCTAAAGATAAATGTTGCTGGTGAGCACAATTCC
CATCGTCATAAAGGTAAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTAAATTG
Found at i:948626 original size:18 final size:19
Alignment explanation
Indices: 948605--948657 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
948595 TTTTTCTTTA
*
948605 TTTTTCCTTTGTTTTTGCT
1 TTTTTACTTTGTTTTTGCT
* *
948624 TTTTTATTTTCTTTTTGCT
1 TTTTTACTTTGTTTTTGCT
948643 TTTTT-CTTTGTTTTT
1 TTTTTACTTTGTTTTT
948658 CTCTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.02, C:0.11, G:0.08, T:0.79
Consensus pattern (19 bp):
TTTTTACTTTGTTTTTGCT
Found at i:948638 original size:19 final size:18
Alignment explanation
Indices: 948616--948672 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
948606 TTTTCCTTTG
948616 TTTTTGCTTTTTTATTTTC
1 TTTTTGCTTTTTT-TTTTC
* *
948635 TTTTTGCTTTTTTCTTTG
1 TTTTTGCTTTTTTTTTTC
948653 TTTTT-CTCTTTTTTTTTC
1 TTTTTGCT-TTTTTTTTTC
948671 TT
1 TT
948673 CTTCTCTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 2 0.06
18 18 0.55
19 13 0.39
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.81
Consensus pattern (18 bp):
TTTTTGCTTTTTTTTTTC
Found at i:948671 original size:12 final size:12
Alignment explanation
Indices: 948589--948671 Score: 59
Period size: 12 Copynumber: 6.9 Consensus size: 12
948579 ATGTGTCTTG
948589 TTTTCTTTTT-TC
1 TTTT-TTTTTCTC
*
948601 TTTATTTTTC-C
1 TTTTTTTTTCTC
*
948612 TTTGTTTTTGCT-
1 TTT-TTTTTTCTC
948624 TTTTTATTTTCT-
1 TTTTT-TTTTCTC
948636 TTTTGCTTTTT-TC
1 TTTT--TTTTTCTC
*
948649 TTTGTTTTTCTC
1 TTTTTTTTTCTC
948661 TTTTTTTTTCT
1 TTTTTTTTTCT
948672 TCTTCTCTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
11 16 0.28
12 33 0.58
13 7 0.12
14 1 0.02
ACGTcount: A:0.02, C:0.13, G:0.05, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:948677 original size:18 final size:17
Alignment explanation
Indices: 948624--948683 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 17
948614 TGTTTTTGCT
948624 TTTTTATTTTCTTTT-TGC
1 TTTTT-TTTTCTTTTCT-C
*
948642 TTTTTTCTTTGTTTTTCTC
1 TTTTTT-TTT-CTTTTCTC
948661 TTTTTTTTTCTTCTTCTC
1 TTTTTTTTTCTT-TTCTC
948679 TTTTT
1 TTTTT
948684 GTTCTTGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
17 3 0.08
18 21 0.58
19 11 0.31
20 1 0.03
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTTTTTTCTTTTCTC
Found at i:948683 original size:19 final size:18
Alignment explanation
Indices: 948622--948683 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 18
948612 TTTGTTTTTG
948622 CTTTTTTATTTTCTTTT-T
1 CTTTTTT-TTTTCTTTTCT
948640 GCTTTTTTCTTTGT-TTTTCT
1 -CTTTTTT-TTT-TCTTTTCT
948660 C-TTTTTTTTTCTTCTTCT
1 CTTTTTTTTTTCTT-TTCT
948678 CTTTTT
1 CTTTTT
948684 GTTCTTGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 1 0.03
17 5 0.14
18 10 0.27
19 19 0.51
20 2 0.05
ACGTcount: A:0.02, C:0.16, G:0.03, T:0.79
Consensus pattern (18 bp):
CTTTTTTTTTTCTTTTCT
Found at i:955510 original size:124 final size:124
Alignment explanation
Indices: 955279--955616 Score: 493
Period size: 124 Copynumber: 2.7 Consensus size: 124
955269 CTAGAAAGCT
* ** * *
955279 CATTCGCTGTGAAGTTGAGTTTTGAATTGGATATCCTTCGT-TGTGAACTTGAAATCCGATCTAG
1 CATTCGTTGTGAAGTTGAGACTTGAATTGGATATCCTTCGTCT-TGAAGTTGAAATCCAATCTA-
* * *
955343 AA-ATGAATGTTGCTTGTGGGCATGATATCCTTCGTTGTGAAGTTGAAATCGTAAATGG-C
64 AAGATGAATGTTGCTAGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTAAATGGCC
*
955402 CACTTCGTTGTGAAGTTGAGACTTGAATTGAATATCCTTCGTCTTGAAGTTGAAATCCAATCTAA
1 CA-TTCGTTGTGAAGTTGAGACTTGAATTGGATATCCTTCGTCTTGAAGTTGAAATCCAATCTAA
* *
955467 AGATGAATGTTGCTAGTGGGCACGATATCCTTCGTCGTTAAGTTGAAATCGTAGATGGCC
65 AGATGAATGTTGCTAGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTAAATGGCC
* * *
955527 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAAA
1 CATTCGTTGTGAAGTTGAGACTTGAATTGGATATCCTTCGTCTTGAAGTTGAAATCCAATCTAAA
*
955592 GATGAATGTTGCTGGTGGGCACGAT
66 GATGAATGTTGCTAGTGGGCACGAT
955617 TAGAAGAAGC
Statistics
Matches: 195, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
123 4 0.02
124 187 0.96
125 4 0.02
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (124 bp):
CATTCGTTGTGAAGTTGAGACTTGAATTGGATATCCTTCGTCTTGAAGTTGAAATCCAATCTAAA
GATGAATGTTGCTAGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTAAATGGCC
Found at i:956402 original size:14 final size:14
Alignment explanation
Indices: 956383--956411 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
956373 TATAATGGTT
956383 TCGTTGACAATGTC
1 TCGTTGACAATGTC
956397 TCGTTGACAATGTC
1 TCGTTGACAATGTC
956411 T
1 T
956412 AATTGACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (14 bp):
TCGTTGACAATGTC
Found at i:956417 original size:14 final size:14
Alignment explanation
Indices: 956386--956419 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
956376 AATGGTTTCG
**
956386 TTGACAATGTCTCG
1 TTGACAATGTCTAA
956400 TTGACAATGTCTAA
1 TTGACAATGTCTAA
956414 TTGACA
1 TTGACA
956420 TCTGATGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (14 bp):
TTGACAATGTCTAA
Found at i:958941 original size:4 final size:4
Alignment explanation
Indices: 958932--958956 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
958922 GATGCCCACT
958932 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
958957 GGAGTAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:961512 original size:25 final size:25
Alignment explanation
Indices: 961462--961513 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
961452 TATCACCCGA
*
961462 CTATTCATTATATTTTGAACTTGTT
1 CTATTCATTATATTTTGAACTCGTT
*
961487 CTATTCATTATGTTTT-AGACTCGTT
1 CTATTCATTATATTTTGA-ACTCGTT
961512 CT
1 CT
961514 TTTATGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (25 bp):
CTATTCATTATATTTTGAACTCGTT
Found at i:966003 original size:12 final size:12
Alignment explanation
Indices: 965986--966038 Score: 76
Period size: 12 Copynumber: 4.7 Consensus size: 12
965976 CTAAAAAAAG
965986 AAATAATAACAA
1 AAATAATAACAA
965998 AAATAATAACAA
1 AAATAATAACAA
*
966010 AAATAA-AA-TA
1 AAATAATAACAA
966020 AAATAA-AACAA
1 AAATAATAACAA
966031 AAATAATA
1 AAATAATA
966039 TTAATATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
10 9 0.24
11 9 0.24
12 19 0.51
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
AAATAATAACAA
Found at i:966058 original size:7 final size:7
Alignment explanation
Indices: 966033--966077 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
966023 TAAAACAAAA
966033 ATAATAT
1 ATAATAT
966040 -TAATAT
1 ATAATAT
966046 -TAATAT
1 ATAATAT
966052 ATAATAT
1 ATAATAT
966059 ATAATAT
1 ATAATAT
*
966066 GTAAGTAT
1 ATAA-TAT
966074 ATAA
1 ATAA
966078 ATTATGCCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 12 0.35
7 16 0.47
8 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (7 bp):
ATAATAT
Found at i:966265 original size:61 final size:60
Alignment explanation
Indices: 966196--966328 Score: 185
Period size: 61 Copynumber: 2.2 Consensus size: 60
966186 ATTTTAAAAA
** ** *
966196 ATGTTTTCAAAGTTATATGTTATATGTTTTCAAAAGCGTTTTTAAAAACTATATATTATAT
1 ATGTTTTCAAAACTATATAATATATGTTTTCAAAAACGTTTTT-AAAACTATATATTATAT
* * *
966257 ATGTTTTCAAAACTATATAATATATGTTTTTAAAAATGTTTTTAAAATTATATATTATAT
1 ATGTTTTCAAAACTATATAATATATGTTTTCAAAAACGTTTTTAAAACTATATATTATAT
966317 ATGTTTTCAAAA
1 ATGTTTTCAAAA
966329 ATGTTTTCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 28 0.44
61 36 0.56
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (60 bp):
ATGTTTTCAAAACTATATAATATATGTTTTCAAAAACGTTTTTAAAACTATATATTATAT
Found at i:966279 original size:23 final size:24
Alignment explanation
Indices: 966235--966292 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
966225 TCAAAAGCGT
966235 TTTTAAAAACTATATATTATATATG
1 TTTTAAAAACTATATA-TATATATG
*
966260 TTTTCAAAACTATATA-ATATATG
1 TTTTAAAAACTATATATATATATG
966283 TTTTTAAAAA
1 -TTTTAAAAA
966293 TGTTTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 7 0.23
24 8 0.27
25 15 0.50
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (24 bp):
TTTTAAAAACTATATATATATATG
Found at i:966303 original size:11 final size:12
Alignment explanation
Indices: 966280--966340 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
966270 TATATAATAT
966280 ATGTTTTTAAAA
1 ATGTTTTTAAAA
966292 ATGTTTTTAAAA
1 ATGTTTTTAAAA
* * * * *
966304 TTATATATTATAT
1 ATGT-TTTTAAAA
*
966317 ATGTTTTCAAAA
1 ATGTTTTTAAAA
*
966329 ATGTTTTCAAAA
1 ATGTTTTTAAAA
966341 CTATCTATTA
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
12 30 0.81
13 7 0.19
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (12 bp):
ATGTTTTTAAAA
Found at i:966320 original size:37 final size:37
Alignment explanation
Indices: 966257--966503 Score: 329
Period size: 37 Copynumber: 6.7 Consensus size: 37
966247 TATATTATAT
* *
966257 ATGTTTTCAAAACTATATA--ATATATGTTTTTAAAA
1 ATGTTTTCAAAACTATATATTATATACGTTTTCAAAA
* * *
966292 ATGTTTTTAAAATTATATATTATATATGTTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATACGTTTTCAAAA
*
966329 ATGTTTTCAAAACTATCTATTATATACGTTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATACGTTTTCAAAA
* * * *
966366 ATATTTCCAAAACTATATATTATATACGTTCTAAAAA
1 ATGTTTTCAAAACTATATATTATATACGTTTTCAAAA
*
966403 ATGTTTACAAAAACTATATATTATATACGTTTTCAAAA
1 ATGTTTTC-AAAACTATATATTATATACGTTTTCAAAA
*
966441 ATG-TTTCAAAAACTATATATTATATACGCTTTCAAAA
1 ATGTTTTC-AAAACTATATATTATATACGTTTTCAAAA
* *
966478 ATGTTTTTAAAATTATATATTATATA
1 ATGTTTTCAAAACTATATATTATATA
966504 TATTTCAAAA
Statistics
Matches: 188, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
35 17 0.09
37 138 0.73
38 33 0.18
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.44
Consensus pattern (37 bp):
ATGTTTTCAAAACTATATATTATATACGTTTTCAAAA
Found at i:966353 original size:97 final size:96
Alignment explanation
Indices: 966187--966365 Score: 252
Period size: 97 Copynumber: 1.9 Consensus size: 96
966177 TTCAAAACTA
* *
966187 TTTTAAAAAATGTTTTCAAAGTTATATGTTATATGTTTTCAAAAGCGTTTTTAAAAACTATATAT
1 TTTTAAAAAATGTTTTCAAAATTATATGTTATATGTTTTCAAAAACGTTTTTAAAAACTATATAT
*
966252 TATATATGTTTTCAAAACTATATAATATATG
66 TATATACGTTTTCAAAACTATATAATATATG
* * * * * *
966283 TTTTTAAAAATGTTTTTAAAATTATATATTATATATGTTTTCAAAAATG-TTTTCAAAACTATCT
1 TTTTAAAAAATGTTTTCAAAATTATAT-GT-TATATGTTTTCAAAAACGTTTTTAAAAACTATAT
966347 ATTATATACGTTTTCAAAA
64 ATTATATACGTTTTCAAAA
966366 ATATTTCCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
96 24 0.33
97 32 0.44
98 16 0.22
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (96 bp):
TTTTAAAAAATGTTTTCAAAATTATATGTTATATGTTTTCAAAAACGTTTTTAAAAACTATATAT
TATATACGTTTTCAAAACTATATAATATATG
Found at i:966514 original size:112 final size:111
Alignment explanation
Indices: 966257--966515 Score: 328
Period size: 112 Copynumber: 2.3 Consensus size: 111
966247 TATATTATAT
* ** ** * *
966257 ATGTTTTCAAAACTATATA--ATATATGTTTTTAAAAATGTTTTTAAAATTATATATTATATATG
1 ATGTTTTCAAAACTATATATTATATATATTTCAAAAAATGTTTCAAAAACTATATATTATATACG
* *
966320 TTTTCAAAAATGTTTTCAAAACTATCTATTATATACGTTTTCAAAA
66 TTTTCAAAAATGTTTTCAAAACTATATATTATATACGCTTTCAAAA
* * **
966366 ATATTTCCAAAACTATATATTATATA-CGTTCTAAAAAATGTTTACAAAAACTATATATTATATA
1 ATGTTTTCAAAACTATATATTATATATATTTC-AAAAAATGTTT-CAAAAACTATATATTATATA
966430 CGTTTTCAAAAATG-TTTCAAAAACTATATATTATATACGCTTTCAAAA
64 CGTTTTCAAAAATGTTTTC-AAAACTATATATTATATACGCTTTCAAAA
* *
966478 ATGTTTTTAAAATTATATATTATATATATTTCAAAAAA
1 ATGTTTTCAAAACTATATATTATATATATTTCAAAAAA
966516 ATATTTTTAA
Statistics
Matches: 126, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
109 17 0.13
110 2 0.02
111 19 0.15
112 85 0.67
113 3 0.02
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (111 bp):
ATGTTTTCAAAACTATATATTATATATATTTCAAAAAATGTTTCAAAAACTATATATTATATACG
TTTTCAAAAATGTTTTCAAAACTATATATTATATACGCTTTCAAAA
Found at i:966516 original size:75 final size:72
Alignment explanation
Indices: 966257--966538 Score: 293
Period size: 75 Copynumber: 3.8 Consensus size: 72
966247 TATATTATAT
* * * * * * * *
966257 ATGTTTTCAAAACTATATAATATAT-GTTTTTAAAAATGTTTTTAAAATTATATATTATATATGT
1 ATGTTTTAAAAACTATATATTATATACTTTTCAAAAATATTTCTAAAACTATATATTATATACG-
966321 TTTCAAAA
65 TTTCAAAA
* * *
966329 ATGTTTTCAAAACTATCTATTATATACGTTTTCAAAAATATTTCCAAAACTATATATTATATACG
1 ATGTTTTAAAAACTATATATTATATAC-TTTTCAAAAATATTTCTAAAACTATATATTATATACG
*
966394 TTCTAAAAA
65 TT-TCAAAA
* * *
966403 ATGTTTACAAAAACTATATATTATATACGTTTTCAAAAATGTTTCAAAAACTATATATTATATAC
1 ATGTTT-TAAAAACTATATATTATATAC-TTTTCAAAAATATTTCTAAAACTATATATTATATAC
966468 GCTTTCAAAA
64 G-TTTCAAAA
* * *
966478 ATGTTTTTAAAATTATATATTATATA-TATTTCAAAAAAATATTTTTAAAA-T-TATATTATAT
1 ATGTTTTAAAAACTATATATTATATACT-TTTC--AAAAATATTTCTAAAACTATATATTATAT
966539 TATCATTATA
Statistics
Matches: 180, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
72 24 0.13
73 16 0.09
74 60 0.33
75 78 0.43
76 2 0.01
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (72 bp):
ATGTTTTAAAAACTATATATTATATACTTTTCAAAAATATTTCTAAAACTATATATTATATACGT
TTCAAAA
Found at i:966533 original size:112 final size:111
Alignment explanation
Indices: 966288--966533 Score: 332
Period size: 112 Copynumber: 2.2 Consensus size: 111
966278 ATATGTTTTT
* *
966288 AAAAATGTTTTTAAAATTATATATTATATATGTTTTCAAAAATGTTTTCAAAACTATCTATTATA
1 AAAAATGTTTTTAAAATTATATATTATATACGTTTTCAAAAATGTTTTCAAAACTATATATTATA
* * *
966353 TACGTTTTCAAAAATATTTCCAAAACTATATATTATATACGTTCTA
66 TACGCTTTCAAAAATATTTCCAAAACTATATATTATATAAGTTCAA
** *
966399 AAAAATGTTTACAAAAACTATATATTATATACGTTTTCAAAAATG-TTTCAAAAACTATATATTA
1 AAAAATGTTT-TTAAAATTATATATTATATACGTTTTCAAAAATGTTTTC-AAAACTATATATTA
* ** * *
966463 TATACGCTTTCAAAAATGTTTTTAAAATTATATATTATATATATTTCAA
64 TATACGCTTTCAAAAATATTTCCAAAACTATATATTATATA-AGTTCAA
*
966512 AAAAATATTTTTAAAATTATAT
1 AAAAATGTTTTTAAAATTATAT
966534 TATATTATCA
Statistics
Matches: 115, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
111 14 0.12
112 88 0.77
113 13 0.11
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (111 bp):
AAAAATGTTTTTAAAATTATATATTATATACGTTTTCAAAAATGTTTTCAAAACTATATATTATA
TACGCTTTCAAAAATATTTCCAAAACTATATATTATATAAGTTCAA
Found at i:974986 original size:2 final size:2
Alignment explanation
Indices: 974979--975011 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
974969 TGAGATACTA
974979 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
975012 ACTAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:979478 original size:3 final size:3
Alignment explanation
Indices: 979470--979524 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
979460 CCTTTTTTAA
*
979470 ATT ATT ATT ATT AATT ATT ATT TTT A-T ATT -TAT ATT ATT ATT -TT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
*
979514 ATT AAT ATT AT
1 ATT ATT ATT AT
979525 ATTTTTACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 5 0.12
3 34 0.79
4 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:979502 original size:28 final size:28
Alignment explanation
Indices: 979475--979528 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
979465 TTTAAATTAT
979475 TATTATTA-ATTATTATTTTTATATTTA
1 TATTATTATATTATTATTTTTATATTTA
* * *
979502 TATTATTATTTTATTAATATTATATTT
1 TATTATTATATTATTATTTTTATATTT
979529 TTACATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (28 bp):
TATTATTATATTATTATTTTTATATTTA
Found at i:979507 original size:17 final size:16
Alignment explanation
Indices: 979477--979531 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
979467 TAAATTATTA
979477 TTATTAATTATTATTTT
1 TTATTAA-TATTATTTT
*
979494 TATATTTATATTATTATT
1 T-TATTAATATTATT-TT
979512 TTATTAATATTATATTT
1 TTATTAATATTAT-TTT
979529 TTA
1 TTA
979532 CATATTTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 24 0.73
18 9 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTAATATTATTTT
Found at i:979527 original size:19 final size:19
Alignment explanation
Indices: 979470--979527 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 19
979460 CCTTTTTTAA
979470 ATTATTATTATTAATTATTAT
1 ATTATT-TTATTAA-TATTAT
* *
979491 -TT-TTATATTTATA-T-T
1 ATTATTTTATTAATATTAT
979506 ATTATTTTATTAATATTAT
1 ATTATTTTATTAATATTAT
979525 ATT
1 ATT
979528 TTTACATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
15 1 0.03
16 3 0.10
17 11 0.38
18 6 0.21
19 6 0.21
20 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTATTTTATTAATATTAT
Found at i:980487 original size:17 final size:17
Alignment explanation
Indices: 980461--980501 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
980451 CTTTATCTTT
*
980461 TCACTGTTACATATTAG
1 TCACTATTACATATTAG
980478 TCACTATTACATATTAG
1 TCACTATTACATATTAG
980495 TCACTAT
1 TCACTAT
980502 CCATGCTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (17 bp):
TCACTATTACATATTAG
Found at i:980876 original size:29 final size:29
Alignment explanation
Indices: 980830--980920 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
980820 ACCCTTTAAG
*
980830 TTTCTGTTTTTCCATTTTAGTCCTCTAAC
1 TTTCTGTTTTACCATTTTAGTCCTCTAAC
* * * * **
980859 TTTCTGTTTTAGCTTTTTAGTTCTTTATG
1 TTTCTGTTTTACCATTTTAGTCCTCTAAC
** * *
980888 TTTCTGTTTTTATTATTTTGGTCCTGTAAC
1 TTTCTG-TTTTACCATTTTAGTCCTCTAAC
980918 TTT
1 TTT
980921 TTTTATTTAT
Statistics
Matches: 46, Mismatches: 15, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
29 28 0.61
30 18 0.39
ACGTcount: A:0.12, C:0.15, G:0.11, T:0.62
Consensus pattern (29 bp):
TTTCTGTTTTACCATTTTAGTCCTCTAAC
Found at i:986876 original size:36 final size:38
Alignment explanation
Indices: 986834--986933 Score: 159
Period size: 36 Copynumber: 2.7 Consensus size: 38
986824 TTTCTTTTGT
*
986834 AAAACAAATTTTGTCTCGCTTGAGACAGTTT-TTT-AA
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTAAA
*
986870 AAAACAAATTTTGTCTCGCTTGAGATAATTTCTTTAAA
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTAAA
*
986908 AAAACAAATTTCGTCTCGCTTGAGAC
1 AAAACAAATTTTGTCTCGCTTGAGAC
986934 CTTTTCCCTT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 29 0.50
37 3 0.05
38 26 0.45
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (38 bp):
AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTAAA
Found at i:987027 original size:105 final size:104
Alignment explanation
Indices: 986908--987207 Score: 390
Period size: 105 Copynumber: 2.9 Consensus size: 104
986898 TTTCTTTAAA
* * * *
986908 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTGGATATACAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTT-GAGATACAAATTTCAAATTTGTTTCACA
* * * *
986973 TTAAGCAAAGTTAATATCACTTGAGATTGTTGTTTCTTTT
65 TTAAACAAAATTAATATCACTTGAGATTGTTGTTTATTTC
* * *
987013 AAAACAAACTTCGTCTCGCTTGAGATATTTTTCCTTTGAGATACAAATTTCAAATTTGCTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCC-TTGAGATACAAATTTCAAATTTGTTTCACA
* *
987078 TGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTC
65 TTAAACAAAATTAATATCACTTGAGATTGTTGTTTATTTC
* *
987118 AAAACAAATTTCGTTTCGCTTGAGACATTTTTTTCTCTGAGATACAAATTT-AAATTTGTTGT-A
1 AAAACAAATTTCGTCTCGCTTGAGACA-TTTTTCCT-TGAGATACAAATTTCAAATTTGTT-TCA
987181 C-TTGAAACAAAATTAATATCACTTGAG
63 CATT-AAACAAAATTAATATCACTTGAG
987208 TTTTTCAAAA
Statistics
Matches: 170, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
104 1 0.01
105 146 0.86
106 23 0.14
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (104 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTGAGATACAAATTTCAAATTTGTTTCACAT
TAAACAAAATTAATATCACTTGAGATTGTTGTTTATTTC
Found at i:987396 original size:29 final size:28
Alignment explanation
Indices: 987359--987429 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 28
987349 CTCTTGAGAT
987359 AAATCTTTGAGTCTGTTCCTTTTGAATA-A
1 AAATCTTTGAGT-TGTTCCTTTTGAA-ACA
*
987388 AAATCTTTGAGTTGTTTCTTTTGAAACA
1 AAATCTTTGAGTTGTTCCTTTTGAAACA
987416 AATATCTTTGAGTT
1 AA-ATCTTTGAGTT
987430 TTATTTATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 1 0.03
28 15 0.38
29 23 0.59
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.46
Consensus pattern (28 bp):
AAATCTTTGAGTTGTTCCTTTTGAAACA
Found at i:987530 original size:62 final size:62
Alignment explanation
Indices: 987419--987568 Score: 221
Period size: 62 Copynumber: 2.4 Consensus size: 62
987409 TGAAACAAAT
* *
987419 ATCTTTGAGTTTTATTTATGTTAAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAA
1 ATCTTTGAG--TTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAA
*
987483 ATCTTTGAGTCTATTTATTTTGAAACAAAG-TTTGTCTCTCTTGAGACAATTTCGTGAAAAAA
1 ATCTTTGAGT-TATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAA
* *
987545 ATCTTTGAGTTGTTTCTTTTGAAA
1 ATCTTTGAGTTATTTATTTTGAAA
987569 AAAATCTTTG
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
61 12 0.15
62 42 0.52
63 17 0.21
64 9 0.11
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (62 bp):
ATCTTTGAGTTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAA
Found at i:987574 original size:27 final size:28
Alignment explanation
Indices: 987537--987606 Score: 108
Period size: 27 Copynumber: 2.5 Consensus size: 28
987527 GACAATTTCG
987537 TGAAAAAAATCTTTGAGT-TGTTTCTTT
1 TGAAAAAAATCTTTGAGTCTGTTTCTTT
987564 TGAAAAAAATCTTTGAGTCTGTTTCTTT
1 TGAAAAAAATCTTTGAGTCTGTTTCTTT
*
987592 GGAAACAAAAT-TTTG
1 TGAAA-AAAATCTTTG
987607 TCTCTCTTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 18 0.45
28 17 0.43
29 5 0.12
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.43
Consensus pattern (28 bp):
TGAAAAAAATCTTTGAGTCTGTTTCTTT
Found at i:987661 original size:89 final size:87
Alignment explanation
Indices: 987478--987661 Score: 199
Period size: 90 Copynumber: 2.1 Consensus size: 87
987468 AATTTCGTAA
* *
987478 AAAAAATCTTTGAGTCTATTTATTTTGAAACAAAGTTTGTCTCTCTTGAGACAATTTCGTGAAAA
1 AAAAAATCTTTGAGTCTATTTATTTGGAAACAAAGTTTGTCTCTCTTGAGAAAATTTCGTGAAAA
* * *
987543 AAATCTTTGAGTTGTTTCTTTT
66 AAATATTTGAGTTATCTCTTTT
* * * * *
987565 GAAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGGGAAAATTTCTTTT
1 --AAAAAATCTTTGAGTCTATTTATTTGGAAAC-AAAGTTTGTCTCTCTTGAGAAAATTTC--GT
**
987630 GAAAATCATATTTGAGTATATCTC-TTT
61 GAAAAAAATATTTGAGT-TATCTCTTTT
987657 AAAAA
1 AAAAA
987662 CAAATTTTGT
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
89 28 0.35
90 29 0.37
92 18 0.23
93 4 0.05
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (87 bp):
AAAAAATCTTTGAGTCTATTTATTTGGAAACAAAGTTTGTCTCTCTTGAGAAAATTTCGTGAAAA
AAATATTTGAGTTATCTCTTTT
Found at i:987663 original size:65 final size:64
Alignment explanation
Indices: 987557--987679 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 64
987547 CTTTGAGTTG
* * * * **
987557 TTTCTTTTGAAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGGGAAAA
1 TTTCTTTTGAAAAAAATATTTGAGTATATCTCTTTAAAAAC-AAATTTTGTCTCTCTTGGGAAAA
**
987622 TTTCTTTTGAAAATCATATTTGAGTATATCTCTTTAAAAACAAATTTTGTCTCTCTTG
1 TTTCTTTTGAAAAAAATATTTGAGTATATCTCTTTAAAAACAAATTTTGTCTCTCTTG
987680 AGATAGTTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
64 17 0.34
65 33 0.66
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (64 bp):
TTTCTTTTGAAAAAAATATTTGAGTATATCTCTTTAAAAACAAATTTTGTCTCTCTTGGGAAAA
Found at i:987671 original size:154 final size:156
Alignment explanation
Indices: 987381--987732 Score: 381
Period size: 154 Copynumber: 2.2 Consensus size: 156
987371 CTGTTCCTTT
*
987381 TGAATAAAAATCTTTGAGTTGTTTCTTTTGAAACAAATATCTTTGAGTTTTATTTATGTTAAAAC
1 TGAATAAAAATCTTTGAGTTGTTTCTTTTGAAACAAATATCTTTGAGTTCTATTTATGTTAAAAC
* * * * * **
987446 AAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAAATCTTTGAGTCTATTTATTTTGAAACAA
66 AAAATTTTGTCTCTCTTGAGAAAATTTCGTAAAAAAAATATTTGAGTATATCTATTTAAAAACAA
987511 AGTTTGTCTCTCTTGAGACAATTTCG
131 AGTTTGTCTCTCTTGAGACAATTTCG
* * *
987537 TGAA-AAAAATCTTTGAGTTGTTTCTTTTGAAA-AAA-ATCTTTGAG-TCTGTTTCT-TTGGAAA
1 TGAATAAAAATCTTTGAGTTGTTTCTTTTGAAACAAATATCTTTGAGTTCTATTTATGTT-AAAA
* * * ** *
987597 CAAAATTTTGTCTCTCTTGGGAAAATTTCTTTTGAAAATCATATTTGAGTATATCTCTTTAAAAA
65 CAAAATTTTGTCTCTCTTGAGAAAATTTC--GTAAAAAAAATATTTGAGTATATCTATTTAAAAA
* * * *
987662 CAAATTTTGTCTCTCTTGAGATAGTTTCTAA
128 CAAAGTTTGTCTCTCTTGAGACAATTTC--G
* * * *
987693 TGAAAAAATAACCTTTGGGATTGTTTCCTTTGAAACAAAT
1 TGAATAAA-AATCTTTGAG-TTGTTTCTTTTGAAACAAAT
987733 TTCGTCTCAC
Statistics
Matches: 162, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
151 2 0.01
152 35 0.22
153 9 0.06
154 52 0.32
155 28 0.17
156 8 0.05
157 3 0.02
158 8 0.05
159 14 0.09
160 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (156 bp):
TGAATAAAAATCTTTGAGTTGTTTCTTTTGAAACAAATATCTTTGAGTTCTATTTATGTTAAAAC
AAAATTTTGTCTCTCTTGAGAAAATTTCGTAAAAAAAATATTTGAGTATATCTATTTAAAAACAA
AGTTTGTCTCTCTTGAGACAATTTCG
Found at i:987980 original size:67 final size:66
Alignment explanation
Indices: 987885--988053 Score: 161
Period size: 67 Copynumber: 2.6 Consensus size: 66
987875 CCTTTCAATG
* * * * *
987885 TCATCTTTGAG-TCGTTTCCCTTGAAACAAAATTTTGTCTCTTGAAACATTTTCTCTT-AAAACA
1 TCATCTTTGAGTTTGTTTCTCTGGAAACAAAATTTTGTCTCTTAAAACAGTTTCTCTTGAAAA-A
987948 AGA
65 A-A
** * * * *
987951 TCATCTTTGAGTTTGTTTCTCTGGAAACAAGGTTTTATCCCTTAAAACAGTTTCTTTTGAAGAAA
1 TCATCTTTGAGTTTGTTTCTCTGGAAACAAAATTTTGTCTCTTAAAACAGTTTCTCTTGAAAAAA
988016 A
66 A
* *
988017 --ATC--TGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTC
1 TCATCTTTGAGTTTGTTTCTCTGGAAACAAAATTTTGTCTC
988054 ACTAAGATAC
Statistics
Matches: 84, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
62 28 0.33
64 3 0.04
66 12 0.14
67 38 0.45
68 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (66 bp):
TCATCTTTGAGTTTGTTTCTCTGGAAACAAAATTTTGTCTCTTAAAACAGTTTCTCTTGAAAAAA
A
Found at i:988480 original size:28 final size:28
Alignment explanation
Indices: 988434--988530 Score: 99
Period size: 29 Copynumber: 3.3 Consensus size: 28
988424 GAGACAGTTG
988434 CTTTTGAAACACATTATCTTTGAG-CTTGTTT
1 CTTTTGAAACA-A--ATCTTTGAGTC-TGTTT
988465 -TTCTTGAAACAAATCTTTTGAGTCTGTTT
1 CTT-TTGAAACAAATC-TTTGAGTCTGTTT
* *
988494 CTTTTGAAACAAATCTTTGAATCGGTTT
1 CTTTTGAAACAAATCTTTGAGTCTGTTT
*
988522 CTCTTGAAA
1 CTTTTGAAA
988531 TCATGACTCC
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
28 22 0.37
29 23 0.39
30 6 0.10
31 8 0.14
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGTCTGTTT
Found at i:988801 original size:89 final size:84
Alignment explanation
Indices: 988640--988888 Score: 365
Period size: 89 Copynumber: 2.9 Consensus size: 84
988630 TAACCAGCCG
*
988640 TCCTCATCAAGTAGGAACCGAGTTATCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGC
1 TCCTCATCACGTAGGAACCGAG---TCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGC
988705 AGTGTCATCCCCTCACCAGATT
63 AGTGTCATCCCCTCACCAGATT
988727 TCCTCATCACGTAGGAACCGAGTCACCCTTAGATGGCCAAAAAAAAAACTCTTCATCACGTATGA
1 TCCTCATCACGTAGGAACCGAGTCACCCTTAGATGGCC-----AAAAACTCTTCATCACGTATGA
*
988792 GCAGTGTCATCCCCTGACCAGATT
61 GCAGTGTCATCCCCTCACCAGATT
* * *
988816 TCCTCATCACGTAGGAACCGAGTCACCCTTAGACGACC-AGAACTCTTCATCACGTATGAGCAGT
1 TCCTCATCACGTAGGAACCGAGTCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGCAGT
*
988880 GTCGTCCCC
66 GTCATCCCC
988889 ACCAACACAC
Statistics
Matches: 151, Mismatches: 6, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
83 33 0.22
84 16 0.11
87 21 0.14
89 81 0.54
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (84 bp):
TCCTCATCACGTAGGAACCGAGTCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGCAGT
GTCATCCCCTCACCAGATT
Found at i:989044 original size:3 final size:3
Alignment explanation
Indices: 989036--989090 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
989026 CATTTTTTAA
*
989036 ATT ATT ATT ATT AATT ATT ATT TTT A-T ATT -TAT ATT ATT ATT -TT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
*
989080 ATT AAT ATT AT
1 ATT ATT ATT AT
989091 ATTTTTACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 5 0.12
3 34 0.79
4 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:989068 original size:28 final size:28
Alignment explanation
Indices: 989041--989094 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
989031 TTTAAATTAT
989041 TATTATTA-ATTATTATTTTTATATTTA
1 TATTATTATATTATTATTTTTATATTTA
* * *
989068 TATTATTATTTTATTAATATTATATTT
1 TATTATTATATTATTATTTTTATATTT
989095 TTACATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (28 bp):
TATTATTATATTATTATTTTTATATTTA
Found at i:989073 original size:17 final size:16
Alignment explanation
Indices: 989043--989097 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
989033 TAAATTATTA
989043 TTATTAATTATTATTTT
1 TTATTAA-TATTATTTT
*
989060 TATATTTATATTATTATT
1 T-TATTAATATTATT-TT
989078 TTATTAATATTATATTT
1 TTATTAATATTAT-TTT
989095 TTA
1 TTA
989098 CATATTTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 24 0.73
18 9 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTAATATTATTTT
Found at i:989093 original size:19 final size:19
Alignment explanation
Indices: 989036--989093 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 19
989026 CATTTTTTAA
989036 ATTATTATTATTAATTATTAT
1 ATTATT-TTATTAA-TATTAT
* *
989057 -TT-TTATATTTATA-T-T
1 ATTATTTTATTAATATTAT
989072 ATTATTTTATTAATATTAT
1 ATTATTTTATTAATATTAT
989091 ATT
1 ATT
989094 TTTACATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
15 1 0.03
16 3 0.10
17 11 0.38
18 6 0.21
19 6 0.21
20 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTATTTTATTAATATTAT
Found at i:993668 original size:2 final size:2
Alignment explanation
Indices: 993661--993686 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
993651 GCCTACCAGG
993661 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
993687 AACTCGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1001661 original size:27 final size:28
Alignment explanation
Indices: 1001609--1001662 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
1001599 CACATCTTAA
*
1001609 TTAAATAAAAAATAAAAGTGATCAAATC
1 TTAAATAAAAAATAAAAGTGACCAAATC
* *
1001637 TTAAAT-AAAAATGAAAGTTACCAAAT
1 TTAAATAAAAAATAAAAGTGACCAAAT
1001663 ATTATGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (28 bp):
TTAAATAAAAAATAAAAGTGACCAAATC
Found at i:1001843 original size:22 final size:23
Alignment explanation
Indices: 1001818--1001875 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
1001808 TTAATGTCGA
*
1001818 GTCAATTTTTTTATTAAAGG-GT
1 GTCAATTTTTTTATGAAAGGAGT
**
1001840 GTCAAAACTTTTTA-GAAAGGAGT
1 GTC-AATTTTTTTATGAAAGGAGT
1001863 GTC-ATTTTTTTAT
1 GTCAATTTTTTTAT
1001876 ATTATATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
21 7 0.25
22 8 0.29
23 13 0.46
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (23 bp):
GTCAATTTTTTTATGAAAGGAGT
Found at i:1006788 original size:14 final size:14
Alignment explanation
Indices: 1006769--1006815 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
1006759 GTATTTGGTT
1006769 TTCTGAAAATTGAA
1 TTCTGAAAATTGAA
*
1006783 TTCTGAAAAATGAA
1 TTCTGAAAATTGAA
* *
1006797 TTATTGAAATTTGAA
1 TT-CTGAAAATTGAA
1006812 TTCT
1 TTCT
1006816 ATAAAATGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (14 bp):
TTCTGAAAATTGAA
Found at i:1006804 original size:15 final size:14
Alignment explanation
Indices: 1006769--1006827 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
1006759 GTATTTGGTT
*
1006769 TTCTGAAAATTGAA
1 TTCTGAAAAATGAA
1006783 TTCTGAAAAATGAA
1 TTCTGAAAAATGAA
* **
1006797 TTATTGAAATTTGAA
1 TT-CTGAAAAATGAA
1006812 TTCT-ATAAAATGAA
1 TTCTGA-AAAATGAA
1006826 TT
1 TT
1006828 ACATTTTTGG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
13 1 0.03
14 24 0.67
15 11 0.31
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (14 bp):
TTCTGAAAAATGAA
Found at i:1006814 original size:29 final size:29
Alignment explanation
Indices: 1006772--1006828 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
1006762 TTTGGTTTTC
1006772 TGAAAATTGAATTCTGA-AAAATGAATTAT
1 TGAAAATTGAATTCT-ATAAAATGAATTAT
*
1006801 TGAAATTTGAATTCTATAAAATGAATTA
1 TGAAAATTGAATTCTATAAAATGAATTA
1006829 CATTTTTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (29 bp):
TGAAAATTGAATTCTATAAAATGAATTAT
Found at i:1011656 original size:35 final size:35
Alignment explanation
Indices: 1011610--1011696 Score: 158
Period size: 34 Copynumber: 2.5 Consensus size: 35
1011600 TGACCGTGAT
*
1011610 TGTGCAGTGCACCTTTTTTTTTTTTTTTGATAAAA
1 TGTGCAGTGCACCTTTTTTTTTTTGTTTGATAAAA
1011645 TGTGCAGTGCACC-TTTTTTTTTTGTTTGATAAAA
1 TGTGCAGTGCACCTTTTTTTTTTTGTTTGATAAAA
1011679 TGTGCAGTGCACCTTTTT
1 TGTGCAGTGCACCTTTTT
1011697 AGTTTCTAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 33 0.66
35 17 0.34
ACGTcount: A:0.18, C:0.14, G:0.17, T:0.51
Consensus pattern (35 bp):
TGTGCAGTGCACCTTTTTTTTTTTGTTTGATAAAA
Found at i:1018803 original size:26 final size:24
Alignment explanation
Indices: 1018753--1018800 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1018743 ATGAAGCATG
1018753 TGATCGAGACCCCTTCGAAGAACA
1 TGATCGAGACCCCTTCGAAGAACA
1018777 TGATCGAGACCCCTTCGAAGAACA
1 TGATCGAGACCCCTTCGAAGAACA
1018801 CATACATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (24 bp):
TGATCGAGACCCCTTCGAAGAACA
Found at i:1026060 original size:31 final size:31
Alignment explanation
Indices: 1026022--1026084 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
1026012 ATTTACGAGT
*
1026022 TCTCTTGTTAACATTAACTTGGGAATTGGGA
1 TCTCTTGTTAACAGTAACTTGGGAATTGGGA
1026053 TCTCTTGTTAACAGTAACTTGGGAATTGGGA
1 TCTCTTGTTAACAGTAACTTGGGAATTGGGA
1026084 T
1 T
1026085 AGAGGTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (31 bp):
TCTCTTGTTAACAGTAACTTGGGAATTGGGA
Found at i:1041706 original size:12 final size:12
Alignment explanation
Indices: 1041685--1041726 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
1041675 CTCTCTGACA
*
1041685 CTCTATCTCTCT
1 CTCTAACTCTCT
1041697 CTCTAACTCTCTCT
1 CTCTAA--CTCTCT
1041711 CTCTAACTCTCT
1 CTCTAACTCTCT
1041723 CTCT
1 CTCT
1041727 CTCCATGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 15 0.56
14 12 0.44
ACGTcount: A:0.12, C:0.43, G:0.00, T:0.45
Consensus pattern (12 bp):
CTCTAACTCTCT
Found at i:1041707 original size:14 final size:14
Alignment explanation
Indices: 1041690--1041728 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
1041680 TGACACTCTA
1041690 TCTCTCTCTCTAAC
1 TCTCTCTCTCTAAC
1041704 TCTCTCTCTCTAAC
1 TCTCTCTCTCTAAC
1041718 TCTCTCTCTCT
1 TCTCTCTCTCT
1041729 CCATGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.10, C:0.44, G:0.00, T:0.46
Consensus pattern (14 bp):
TCTCTCTCTCTAAC
Found at i:1047027 original size:30 final size:30
Alignment explanation
Indices: 1046984--1047065 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
1046974 GGGACCTCAT
* * *
1046984 TCCCCTTTTTGACATCTGTATGGGATAAAC
1 TCCCCGTTCTGACATCTGCATGGGATAAAC
*
1047014 TCCCCGTTCTGACATCTGCATGGGATAAAT
1 TCCCCGTTCTGACATCTGCATGGGATAAAC
* *
1047044 TTCCCGTACTGACATCTGCATG
1 TCCCCGTTCTGACATCTGCATG
1047066 AGATTATATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (30 bp):
TCCCCGTTCTGACATCTGCATGGGATAAAC
Found at i:1047277 original size:12 final size:12
Alignment explanation
Indices: 1047260--1047284 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1047250 AATATTAGTC
1047260 AATTATTATTTT
1 AATTATTATTTT
1047272 AATTATTATTTT
1 AATTATTATTTT
1047284 A
1 A
1047285 TACTTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTATTATTTT
Found at i:1048498 original size:21 final size:21
Alignment explanation
Indices: 1048473--1048596 Score: 112
Period size: 21 Copynumber: 5.8 Consensus size: 21
1048463 ATTTTGGACT
1048473 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
1048494 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
1048515 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
1048536 ATCGCAACGAGAACTTCGACT--
1 ATCGCAAC--GAACTTGGAATAA
*
1048557 ATCGCAACGAAATTGGAATAA
1 ATCGCAACGAACTTGGAATAA
1048578 ATCGCAACGCGAACTTGGA
1 ATCGCAA--CGAACTTGGA
1048597 CTATCGCAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
19 17 0.21
21 37 0.46
23 27 0.33
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:1048531 original size:42 final size:42
Alignment explanation
Indices: 1048469--1048605 Score: 238
Period size: 42 Copynumber: 3.3 Consensus size: 42
1048459 TGCGATTTTG
*
1048469 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAAATTGGAATAAATCGCAACGCGAACTTC
* *
1048511 GACTATCGCAACGAATTTGGAATAAATCGCAACGAGAACTTC
1 GACTATCGCAACGAAATTGGAATAAATCGCAACGCGAACTTC
*
1048553 GACTATCGCAACGAAATTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAAATTGGAATAAATCGCAACGCGAACTTC
1048595 GACTATCGCAA
1 GACTATCGCAA
1048606 TGCGAATATG
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAAATTGGAATAAATCGCAACGCGAACTTC
Found at i:1048602 original size:21 final size:20
Alignment explanation
Indices: 1048466--1048611 Score: 109
Period size: 21 Copynumber: 7.0 Consensus size: 20
1048456 CGTTGCGATT
1048466 TTGGACTATCGCAA-CGAAC
1 TTGGACTATCGCAAGCGAAC
*
1048485 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
* *
1048508 TTCGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
* *
1048527 TTGGAATAAATCGCAACGAGAAC
1 TTGGACT--ATCGCAA-GCGAAC
* *
1048550 TTCGACTATCGCAA-CGAAA
1 TTGGACTATCGCAAGCGAAC
*
1048569 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
1048592 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAA-GCGAA
1048612 TATGTAAATC
Statistics
Matches: 98, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
19 23 0.23
21 47 0.48
23 28 0.29
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
TTGGACTATCGCAAGCGAAC
Found at i:1062646 original size:448 final size:448
Alignment explanation
Indices: 1061808--1063577 Score: 3289
Period size: 448 Copynumber: 4.0 Consensus size: 448
1061798 ATTTTCTGAA
*
1061808 AAAATGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTT--
1 AAAACGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTTAA
**
1061871 TTAAATATTTATTATAAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTA
66 AAAAATATTTATTATAAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTA
1061936 TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
131 TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
1062001 AAATAAAAATATTATATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAA
196 AAATAAAAATATTATATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAA
1062066 TATTACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAA
261 TATTACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAA
1062131 AATTTCTTTTATGAAATTAATAAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAA
326 AATTTCTTTTATGAAATTAATAAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAA
1062196 TAAAAATATAATATCATATATTATTATAATATAACTGAATATATTATTAATATTAAAT
391 TAAAAATATAATATCATATATTATTATAATATAACTGAATATATTATTAATATTAAAT
1062254 AAAACGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTTAA
1 AAAACGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTTAA
1062319 AAAAATATTTATTATAAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTA
66 AAAAATATTTATTATAAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTA
1062384 TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
131 TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
1062449 AAATAAAAATATTATATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAA
196 AAATAAAAATATTATATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAA
1062514 TATTACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAA
261 TATTACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAA
1062579 AATTTCTTTTATGAAATTAATAAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAA
326 AATTTCTTTTATGAAATTAATAAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAA
1062644 TAAAAATATAATATCATATATTATTATAATATAACTGAATATATTATTAATATTAAAT
391 TAAAAATATAATATCATATATTATTATAATATAACTGAATATATTATTAATATTAAAT
1062702 AAAACGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTA-TTTTTGTTAGTTGATAG-TTTTTAA
1 AAAACGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTTAA
1062765 AAAAATATTTA-T-TAAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTA
66 AAAAATATTTATTATAAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTA
1062828 TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
131 TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
1062893 AAATAAAAATATTATATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTT-TTAAAA
196 AAATAAAAATATTATATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAA
1062957 TA-TACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATT-ATAATTAAATAA
261 TATTACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAA
*
1063020 TATTTCTTTTATGAAATTAATAAATAATATAACTTT-ATTTTA-TTTATTATATATTACTAAAAA
326 AATTTCTTTTATGAAATTAATAAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAA
1063083 T-AAAA-ATAATATCATATATTATTATAATA-AACTGAATAT-TTATTAATATTAAAT
391 TAAAAATATAATATCATATATTATTATAATATAACTGAATATATTATTAATATTAAAT
*
1063137 -AAACGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTAAA
1 AAAACGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTTAA
*
1063201 AAAAATATTTATTATAAATATCAAATATAATAAAAGATATTATTTATTATAAAAAGTTAATATTA
66 AAAAATATTTATTATAAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTA
1063266 TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
131 TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
1063331 AAAT-AAAA-ATTATATTATG-TTTTAAATTATTAATAAACAC-TTTGAAGTA-TTTTATTAAAA
196 AAATAAAAATATTATATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAA
1063391 TATTACTATATCATTATA-TAATATT-AATAAAAATAATAGTATTCATTATTAATAATTAAATAA
261 TATTACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAA
* *
1063454 TATTTCTTTTATGAAATTAATAAATAATATAACTTTATTTTTATTTTATTATATATTACTAAAAA
326 AATTTCTTTTATGAAATTAATAAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAA
1063519 TAAAAATATAATATCATATATTATTATAATATAACTGAATATATTATTATAATATTAAA
391 TAAAAATATAATATCATATATTATTATAATATAACTGAATATATTA-T-TAATATTAAA
1063578 AATATTACTT
Statistics
Matches: 1300, Mismatches: 7, Indels: 38
0.97 0.01 0.03
Matches are distributed among these distances:
433 29 0.02
434 110 0.08
435 73 0.06
436 60 0.05
437 33 0.03
438 147 0.11
439 32 0.02
440 9 0.01
441 48 0.04
442 59 0.05
443 8 0.01
444 174 0.13
445 1 0.00
446 80 0.06
447 17 0.01
448 420 0.32
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (448 bp):
AAAACGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTTAA
AAAAATATTTATTATAAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTA
TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
AAATAAAAATATTATATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAA
TATTACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAA
AATTTCTTTTATGAAATTAATAAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAA
TAAAAATATAATATCATATATTATTATAATATAACTGAATATATTATTAATATTAAAT
Found at i:1063453 original size:33 final size:33
Alignment explanation
Indices: 1063387--1063449 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
1063377 GTATTTTATT
*
1063387 AAAATATTACTATATCATTATATAATATTAATA
1 AAAATAATACTATATCATTATATAATATTAATA
*
1063420 AAAATAATAGTAT-TCATTAT-TAATAATTAA
1 AAAATAATACTATATCATTATATAAT-ATTAA
1063450 ATAATATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 4 0.15
32 12 0.44
33 11 0.41
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (33 bp):
AAAATAATACTATATCATTATATAATATTAATA
Found at i:1063584 original size:20 final size:21
Alignment explanation
Indices: 1063534--1063582 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
1063524 ATATAATATC
1063534 ATATATTATTATAATATAACTGA
1 ATATATTATTATAATATAAC--A
*
1063557 ATATATTATTATAATATTAAAA
1 ATATATTATTATAATA-TAACA
1063579 ATAT
1 ATAT
1063583 TACTTGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 16 0.67
24 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATATATTATTATAATATAACA
Found at i:1063657 original size:882 final size:892
Alignment explanation
Indices: 1061821--1063577 Score: 3158
Period size: 882 Copynumber: 2.0 Consensus size: 892
1061811 ATGTTTTAGG
* * * ** ***
1061821 GTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTT-TTTAAATATTTATTA
1 GTGTTTGAGAGATGTTGTATAAAATA-TTTTTATTACATGATAGTTTTTAAAAAAATATTTATTA
1061885 TAAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTATTATTTTTAAAATA
65 TAAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTATTATTTTTAAAATA
1061950 TTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTGAAATAAAAATATTA
130 TTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTGAAATAAAAATATTA
1062015 TATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAATATTACTATATCAT
195 TATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAATATTACTATATCAT
1062080 TATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAAAATTTCTTTTATGA
260 TATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAAAATTTCTTTTATGA
1062145 AATTAATAAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAATAAAAATATAATAT
325 AATTAATAAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAATAAAAATATAATAT
1062210 CATATATTATTATAATATAACTGAATATATTATTAATATTAAATAAAACGTTTTAGGGTGTTTGA
390 CATATATTATTATAATATAACTGAATATATTATTAATATTAAATAAAACGTTTTAGGGTGTTTGA
*
1062275 GAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTTAAAAAAATATTTATTATAAATAT
455 GAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTAAAAAAAATATTTATTATAAATAT
*
1062340 CAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTATTATTTTTAAAATATTATTTC
520 CAAATATAATAAAAGATATTATTTATTATAAAAAGTTAATATTATTATTTTTAAAATATTATTTC
1062405 TATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTGAAATAAAAATATTATATTATG
585 TATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTGAAATAAAAATATTATATTATG
1062470 TTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAATATTACTATATCATTATATTA
650 TTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAATATTACTATATCATTATATTA
1062535 ATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAAAATTTCTTTTATGAAATTAAT
715 ATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAAAATTTCTTTTATGAAATTAAT
1062600 AAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAATAAAAATATAATATCATATAT
780 AAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAATAAAAATATAATATCATATAT
*
1062665 TATTATAATATAACTGAATATATTATTAATATTAAATAAAACGTTTTA
845 TATTATAATATAACTGAATATATTATTAATATTAAATAAAACGTTATA
* * * **
1062713 GGGTGTTTGAGAGATGTTGTGTAAACTATTTTTGTTAGTTGATAGTTTTTAAAAAAATATTTA-T
1 --GTGTTTGAGAGATGTTGTATAAAATATTTTTATTACATGATAGTTTTTAAAAAAATATTTATT
1062777 -TAAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTATTATTTTTAAAAT
64 ATAAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTATTATTTTTAAAAT
1062841 ATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTGAAATAAAAATATT
129 ATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTGAAATAAAAATATT
1062906 ATATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTT-TTAAAATA-TACTATATCA
194 ATATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAATATTACTATATCA
*
1062969 TTATATTAATATTAAATAAAAATAATAGTATTCATTATT-ATAATTAAATAATATTTCTTTTATG
259 TTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAAAATTTCTTTTATG
1063033 AAATTAATAAATAATATAACTTT-ATTTTA-TTTATTATATATTACTAAAAAT-AAAA-ATAATA
324 AAATTAATAAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAATAAAAATATAATA
1063094 TCATATATTATTATAATA-AACTGAATAT-TTATTAATATTAAAT-AAACGTTTTAGGGTGTTTG
389 TCATATATTATTATAATATAACTGAATATATTATTAATATTAAATAAAACGTTTTAGGGTGTTTG
1063156 AGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTAAAAAAAATATTTATTATAAATA
454 AGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTAAAAAAAATATTTATTATAAATA
1063221 TCAAATATAATAAAAGATATTATTTATTATAAAAAGTTAATATTATTATTTTTAAAATATTATTT
519 TCAAATATAATAAAAGATATTATTTATTATAAAAAGTTAATATTATTATTTTTAAAATATTATTT
1063286 CTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTGAAAT-AAAA-ATTATATTAT
584 CTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTGAAATAAAAATATTATATTAT
1063349 G-TTTTAAATTATTAATAAACAC-TTTGAAGTA-TTTTATTAAAATATTACTATATCATTATA-T
649 GTTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAATATTACTATATCATTATATT
*
1063410 AATATT-AATAAAAATAATAGTATTCATTATTAATAATTAAATAATATTTCTTTTATGAAATTAA
714 AATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAAAATTTCTTTTATGAAATTAA
*
1063474 TAAATAATATAACTTTATTTTTATTTTATTATATATTACTAAAAATAAAAATATAATATCATATA
779 TAAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAATAAAAATATAATATCATATA
1063539 TTATTATAATATAACTGAATATATTATTATAATATTAAA
844 TTATTATAATATAACTGAATATATTA-T-TAATATTAAA
1063578 AATATTACTT
Statistics
Matches: 852, Mismatches: 8, Indels: 23
0.96 0.01 0.03
Matches are distributed among these distances:
875 147 0.17
876 8 0.01
877 39 0.05
878 9 0.01
879 21 0.02
880 11 0.01
881 4 0.00
882 196 0.23
883 15 0.02
884 10 0.01
885 24 0.03
886 4 0.00
887 22 0.03
888 6 0.01
889 47 0.06
890 49 0.06
891 8 0.01
892 174 0.20
893 23 0.03
894 35 0.04
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (892 bp):
GTGTTTGAGAGATGTTGTATAAAATATTTTTATTACATGATAGTTTTTAAAAAAATATTTATTAT
AAATATCAAATATAATAAATGATATTATTTATTATAAAAAGTTAATATTATTATTTTTAAAATAT
TATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTGAAATAAAAATATTAT
ATTATGTTTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAATATTACTATATCATT
ATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAAAATTTCTTTTATGAA
ATTAATAAATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAATAAAAATATAATATC
ATATATTATTATAATATAACTGAATATATTATTAATATTAAATAAAACGTTTTAGGGTGTTTGAG
AGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTAAAAAAAATATTTATTATAAATATC
AAATATAATAAAAGATATTATTTATTATAAAAAGTTAATATTATTATTTTTAAAATATTATTTCT
ATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTGAAATAAAAATATTATATTATGT
TTTTAAATTATTAATAAACACATTTGAAGTATTTTTATTAAAATATTACTATATCATTATATTAA
TATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATAAAATTTCTTTTATGAAATTAATA
AATAATATAACTTTAATTTTATTTTATTATATATTACTAAAAATAAAAATATAATATCATATATT
ATTATAATATAACTGAATATATTATTAATATTAAATAAAACGTTATA
Found at i:1067021 original size:18 final size:18
Alignment explanation
Indices: 1066998--1067040 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
1066988 GATTATCAGT
1066998 GGGAATAAAAGATTACCA
1 GGGAATAAAAGATTACCA
1067016 GGGAATAAAAGATTACCA
1 GGGAATAAAAGATTACCA
1067034 GGGAATA
1 GGGAATA
1067041 TAATTACTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.49, C:0.09, G:0.26, T:0.16
Consensus pattern (18 bp):
GGGAATAAAAGATTACCA
Found at i:1077376 original size:21 final size:21
Alignment explanation
Indices: 1077350--1077394 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1077340 GATTTCTGGG
* *
1077350 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1077371 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1077392 CAA
1 CAA
1077395 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1079136 original size:22 final size:22
Alignment explanation
Indices: 1079063--1079128 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
1079053 TATGGACATC
*
1079063 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1079085 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1079107 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1079129 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:1082221 original size:21 final size:21
Alignment explanation
Indices: 1082195--1082239 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1082185 GATTTCTGGG
* *
1082195 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1082216 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1082237 CAA
1 CAA
1082240 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1082644 original size:17 final size:18
Alignment explanation
Indices: 1082596--1082644 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
1082586 TGATTATACG
*
1082596 TATATGAATGACATGAAT
1 TATATGTATGACATGAAT
*
1082614 TGTATGTATG-CATGAA-
1 TATATGTATGACATGAAT
*
1082630 TATATGTTTGACATG
1 TATATGTATGACATG
1082645 CTTTTGAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 8 0.31
17 10 0.38
18 8 0.31
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (18 bp):
TATATGTATGACATGAAT
Found at i:1083984 original size:23 final size:22
Alignment explanation
Indices: 1083925--1083991 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
1083915 TATGGACATC
*
1083925 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1083947 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1083969 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
1083992 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:1091294 original size:25 final size:25
Alignment explanation
Indices: 1091260--1091310 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
1091250 ATTCAATCGG
1091260 ACGAGCCCTCAAAGTTGATCATAAT
1 ACGAGCCCTCAAAGTTGATCATAAT
1091285 ACGAGCCCTCAAAGTTGATCATAAT
1 ACGAGCCCTCAAAGTTGATCATAAT
1091310 A
1 A
1091311 TCAGCTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (25 bp):
ACGAGCCCTCAAAGTTGATCATAAT
Found at i:1098186 original size:41 final size:41
Alignment explanation
Indices: 1098011--1098247 Score: 133
Period size: 41 Copynumber: 5.8 Consensus size: 41
1098001 GCGACATTTG
* * * *
1098011 TAGCGGCGTTTCTAGAACAAACGCCGGTAAAGACTCATACTA
1 TAGCGGCGTTT-TTGTACAAACGCCGCTAAAGACTCATTCTA
* * * * * * *
1098053 TAGCGGCATTTTTATAAAAACGCCGCTAAATAAT-GTTCTT
1 TAGCGGCGTTTTTGTACAAACGCCGCTAAAGACTCATTCTA
* * * * * * *
1098093 TAGTGGTG-TTTTGTACAAACACCGCTATAGTAC-GAGTCTT
1 TAGCGGCGTTTTTGTACAAACGCCGCTAAAG-ACTCATTCTA
* * *
1098133 TACCGGCTTTTTTGTACAAACGCCGCTATAGACTCATTCTA
1 TAGCGGCGTTTTTGTACAAACGCCGCTAAAGACTCATTCTA
** * * * * *
1098174 TAGCGGCGTTTTTACAGAAACACCGCTAAATAAT--TTACTT
1 TAGCGGCGTTTTTGTACAAACGCCGCTAAAGACTCATT-CTA
* * *
1098214 TAGTGGCATTTTTATACAAACGCCGCTAAAGACT
1 TAGCGGCGTTTTTGTACAAACGCCGCTAAAGACT
1098248 GTAATTTAGT
Statistics
Matches: 143, Mismatches: 47, Indels: 12
0.71 0.23 0.06
Matches are distributed among these distances:
39 19 0.13
40 48 0.34
41 66 0.46
42 10 0.07
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (41 bp):
TAGCGGCGTTTTTGTACAAACGCCGCTAAAGACTCATTCTA
Found at i:1098227 original size:40 final size:40
Alignment explanation
Indices: 1098182--1098267 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
1098172 TATAGCGGCG
* * * *
1098182 TTTTTACAGAAACACCGCTAAATAATTTACTTTAGTGGCA
1 TTTTTACACAAACACCGCTAAAGAATGTAATTTAGTGGCA
* * *
1098222 TTTTTATACAAACGCCGCTAAAGACTGTAATTTAGTGGCA
1 TTTTTACACAAACACCGCTAAAGAATGTAATTTAGTGGCA
1098262 TTTTTA
1 TTTTTA
1098268 GAACAAACGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (40 bp):
TTTTTACACAAACACCGCTAAAGAATGTAATTTAGTGGCA
Found at i:1098266 original size:121 final size:122
Alignment explanation
Indices: 1098014--1098279 Score: 299
Period size: 121 Copynumber: 2.2 Consensus size: 122
1098004 ACATTTGTAG
* * * * *
1098014 CGGCGTTTCTAGAACAAACGCCGGTAAAGACTCATACTATAGCGGCATTTTTATAAAAACGCCGC
1 CGGCATTTTTAGAACAAACGCCGCTAAAGACTCATACTATAGCGGCATTTTTACAAAAACACCGC
* * *
1098079 TAAATAATGTTCTTTAGTGGTGTTTTGTACAAACACCGCTATAGTACGAGTCTTTAC
66 TAAATAATGTTCTTTAGTGGTGTTTTATACAAACACCGCTAAAGTACGAGTATTTAC
* * * * * *
1098136 CGGC-TTTTTTGTACAAACGCCGCTATAGACTCATTCTATAGCGGCGTTTTTACAGAAACACCGC
1 CGGCATTTTTAGAACAAACGCCGCTAAAGACTCATACTATAGCGGCATTTTTACAAAAACACCGC
* * *
1098200 TAAATAAT-TTACTTTAGTGGCAT-TTTTATACAAACGCCGCTAAAG-AC-TGTAATTTAG
66 TAAATAATGTT-CTTTAGTGG--TGTTTTATACAAACACCGCTAAAGTACGAGT-ATTTAC
*
1098257 TGGCATTTTTAGAACAAACGCCG
1 CGGCATTTTTAGAACAAACGCCG
1098280 TACAAATGAA
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
120 4 0.03
121 76 0.63
122 39 0.32
123 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (122 bp):
CGGCATTTTTAGAACAAACGCCGCTAAAGACTCATACTATAGCGGCATTTTTACAAAAACACCGC
TAAATAATGTTCTTTAGTGGTGTTTTATACAAACACCGCTAAAGTACGAGTATTTAC
Found at i:1101166 original size:21 final size:21
Alignment explanation
Indices: 1101140--1101198 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
1101130 TGATTTATTA
*
1101140 TTATGGATTTCAATTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
1101161 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
1101182 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
1101199 ATTGGAAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.54
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:1101395 original size:43 final size:43
Alignment explanation
Indices: 1101310--1101422 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
1101300 GAGGTAATTA
* *
1101310 GCGGCGTTTGTATCT-TAAAACGCCGCTATAGATATGACCTTTT
1 GCGGCGTTTGT-TCTAAAAAACGCCGCTATAGACATGACCTTTT
* *
1101353 GCGGCGTTTGTTCTAAAAAACGCCGCTATATACCA-GATCTTTT
1 GCGGCGTTTGTTCTAAAAAACGCCGCTATAGA-CATGACCTTTT
* **
1101396 ACGGCGTTTG-TGGAAAAAACGCCGCTA
1 GCGGCGTTTGTTCTAAAAAACGCCGCTA
1101423 AATCTCAACA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
42 18 0.30
43 42 0.69
44 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
GCGGCGTTTGTTCTAAAAAACGCCGCTATAGACATGACCTTTT
Found at i:1101441 original size:43 final size:42
Alignment explanation
Indices: 1101397--1101619 Score: 302
Period size: 43 Copynumber: 5.2 Consensus size: 42
1101387 AGATCTTTTA
* *
1101397 CGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAACACCTATTA
1 CGGCGTTTGTGG-AAAAACGCCGCTAAATATCAACACCTATTG
*
1101440 CGGCGTTTGTAGGAAAAACGCCGCTAAATCTCAACACCTATTG
1 CGGCGTTTGT-GGAAAAACGCCGCTAAATATCAACACCTATTG
*
1101483 CGGCGTTTGTTGGAAAAACGCAGCTAAATATCAACACCTATTG
1 CGGCGTTTG-TGGAAAAACGCCGCTAAATATCAACACCTATTG
*
1101526 CGGCGTTTATTGGAAAAACGCCGCTAAATATCAACACCTATTG
1 CGGCGTTT-GTGGAAAAACGCCGCTAAATATCAACACCTATTG
* * * ***
1101569 CGGCGTTTGTTGGACAAACGTCGCTATATATCGTTACCTATTG
1 CGGCGTTTG-TGGAAAAACGCCGCTAAATATCAACACCTATTG
1101612 CGGCGTTT
1 CGGCGTTT
1101620 TTTGTTACCA
Statistics
Matches: 164, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
43 161 0.98
44 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (42 bp):
CGGCGTTTGTGGAAAAACGCCGCTAAATATCAACACCTATTG
Found at i:1101500 original size:129 final size:129
Alignment explanation
Indices: 1101346--1101619 Score: 327
Period size: 129 Copynumber: 2.1 Consensus size: 129
1101336 TATAGATATG
* * * * * * * *
1101346 ACCTTTTGCGGCGTTTGTTCTAAAAAACGCCGCTATATA-CCAGATCTTTTACGGCGTTT-GTGG
1 ACCTATTGCGGCGTTTGTTC-GAAAAACGCAGCTAAATATCAACACCTATTACGGCGTTTAGTGG
* *
1101409 AAAAAACGCCGCTAAATCTCAACACCTATTACGGCGTTTGTAGGAAAAACGCCGCTAAATCTCAA
65 -AAAAACGCCGCTAAATATCAACACCTATTACGGCGTTTGTAGGAAAAACGCCGCTAAATATCAA
1101474 C
129 C
* * *
1101475 ACCTATTGCGGCGTTTGTTGGAAAAACGCAGCTAAATATCAACACCTATTGCGGCGTTTATTGGA
1 ACCTATTGCGGCGTTTGTTCGAAAAACGCAGCTAAATATCAACACCTATTACGGCGTTTAGTGGA
* * * * * ***
1101540 AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGGACAAACGTCGCTATATATCGTT
66 AAAACGCCGCTAAATATCAACACCTATTACGGCGTTTGTAGGAAAAACGCCGCTAAATATCAAC
1101604 ACCTATTGCGGCGTTT
1 ACCTATTGCGGCGTTT
1101620 TTTGTTACCA
Statistics
Matches: 122, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
128 15 0.12
129 104 0.85
130 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (129 bp):
ACCTATTGCGGCGTTTGTTCGAAAAACGCAGCTAAATATCAACACCTATTACGGCGTTTAGTGGA
AAAACGCCGCTAAATATCAACACCTATTACGGCGTTTGTAGGAAAAACGCCGCTAAATATCAAC
Found at i:1105607 original size:43 final size:42
Alignment explanation
Indices: 1105554--1105661 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 42
1105544 AAAACGCCGC
* *
1105554 AAAAGATCATGTTATGTAGCGGCG-TTTTCCTGCCAAACGGCGCA
1 AAAAG-TCATGTTATATAGCGGCGCTTTT-CTGCCAAA-GGCCCA
* * * * *
1105598 CAATGTCATGTTATATAGAGTCGCTTTTCTGCCAAATGCCCA
1 AAAAGTCATGTTATATAGCGGCGCTTTTCTGCCAAAGGCCCA
1105640 AAAAGTCATGTTATATAGCGGC
1 AAAAGTCATGTTATATAGCGGC
1105662 ATTTATATTG
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 22 0.42
43 23 0.44
44 7 0.13
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (42 bp):
AAAAGTCATGTTATATAGCGGCGCTTTTCTGCCAAAGGCCCA
Found at i:1107847 original size:3 final size:3
Alignment explanation
Indices: 1107835--1107872 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
1107825 TTATATTTAA
1107835 ATT A-T ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1107873 ATGTTACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1107852 original size:14 final size:14
Alignment explanation
Indices: 1107842--1107870 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1107832 TAAATTATAT
1107842 TATTATTATTATTA
1 TATTATTATTATTA
1107856 TATTATTATTATTA
1 TATTATTATTATTA
1107870 T
1 T
1107871 TAATGTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:1107855 original size:17 final size:17
Alignment explanation
Indices: 1107835--1107872 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
1107825 TTATATTTAA
1107835 ATTATATTATTATTATT
1 ATTATATTATTATTATT
1107852 ATTATATTATTATTATT
1 ATTATATTATTATTATT
1107869 ATTA
1 ATTA
1107873 ATGTTACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTATATTATTATTATT
Found at i:1108645 original size:146 final size:146
Alignment explanation
Indices: 1108237--1108610 Score: 588
Period size: 146 Copynumber: 2.6 Consensus size: 146
1108227 TCGGGAACTC
* * *
1108237 CGATCAACATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAATATCAG
1 CGATCAATATTCCGAACGGTAAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAG
* * *
1108302 GACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGCGGTTTTTAGCCTCTTGC
66 GACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGACGGTTTTTAGCCTCTTGC
*
1108367 CGGTGATCGGAATATT
131 CGGTGATCGGAATATG
* *
1108383 TGATCAATATTCTGAACGGTAAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAG
1 CGATCAATATTCCGAACGGTAAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAG
1108448 GACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGACGGTTTTTAGCCTCTTGC
66 GACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGACGGTTTTTAGCCTCTTGC
*
1108513 CGGTGATCGGAATCTG
131 CGGTGATCGGAATATG
* * * * *
1108529 CGATCAATATTCCGAACGGTGAAAAGTTGCGCG-ATGCCAACACAAACAACCTATTGAAAAATCA
1 CGATCAATATTCCGAACGGTAAAAAGTTGCG-GAAGGCCATCACGAACAACATATTGAAAAATCA
*
1108593 GGACCATCGGACGGTGGA
65 GGACGATCGGACGGTGGA
1108611 TGACGGCAGA
Statistics
Matches: 209, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
146 208 1.00
147 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (146 bp):
CGATCAATATTCCGAACGGTAAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAG
GACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGACGGTTTTTAGCCTCTTGC
CGGTGATCGGAATATG
Found at i:1111029 original size:46 final size:47
Alignment explanation
Indices: 1110922--1111038 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
1110912 TAAATGTATA
1110922 CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
1 CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
* *
1110969 CGAACTAGAAATCATGCGGTTAGGTTTATTTTCTCGAAC-AAGCATG
1 CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
* **
1111015 CGAATTAGTTATCATGCGGTTAGG
1 CGAACTAGAAATCATGCGGTTAGG
1111039 ACTTTTTGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 28 0.43
47 37 0.57
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (47 bp):
CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
Found at i:1111798 original size:6 final size:6
Alignment explanation
Indices: 1111787--1111834 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
1111777 ATTAACACCT
1111787 TTTGCA TTTGCA TTTGGCA TTTGCA TTTGCA TTTGCA -TTGCA -TTGCA
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA
1111834 T
1 T
1111835 GTATTTGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.25
6 24 0.60
7 6 0.15
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.48
Consensus pattern (6 bp):
TTTGCA
Found at i:1111811 original size:19 final size:18
Alignment explanation
Indices: 1111787--1111834 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
1111777 ATTAACACCT
1111787 TTTGCATTTGCATTTGGCA
1 TTTGCATTTGCATTT-GCA
1111806 TTTGCATTTGCATTTGCA
1 TTTGCATTTGCATTTGCA
1111824 -TTGCA-TTGCAT
1 TTTGCATTTGCAT
1111835 GTATTTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.21
17 5 0.17
18 3 0.10
19 15 0.52
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.48
Consensus pattern (18 bp):
TTTGCATTTGCATTTGCA
Found at i:1114681 original size:125 final size:125
Alignment explanation
Indices: 1114455--1114966 Score: 800
Period size: 125 Copynumber: 4.1 Consensus size: 125
1114445 CATCATGTTG
1114455 AGAT-ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGC
1 AGATAATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGC
*
1114519 ATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCATACCAGTATA
66 ATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATA
1114579 AGATAATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGC
1 AGATAATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGC
*
1114644 ATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTGTA
66 ATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATA
* * * *
1114704 AGATGAGGTTGGGGCATGACTGAACCCACATCATGTTAAGATGAAAAGATTCAGACCAAGGAGGC
1 AGATAATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGC
*
1114769 ATGAAGAATGAGCCTTACAATTTGAGGTGATTGGGCATTTTGAAGGCCCGTACCAGTATA
66 ATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATA
* * * * *
1114829 AGATAATGTTTGGGCATGACTGAACCCACATCATGTCGAGATGACAAGA---AGACCAAGAAGGA
1 AGATAATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGC
* * *** * *
1114891 ATTG-AGAATGAGCCTTACAAGTTGAGGTGTTGGAATATTTTGAAGGCCCGTATCAATATA
66 A-TGAAGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATA
*
1114951 AGATAATGTTGTGGCA
1 AGATAATGTTGGGGCA
1114967 CAAGTGACGA
Statistics
Matches: 360, Mismatches: 26, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
122 74 0.21
123 2 0.01
124 4 0.01
125 280 0.78
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (125 bp):
AGATAATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGC
ATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATA
Found at i:1116182 original size:36 final size:36
Alignment explanation
Indices: 1116140--1116216 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
1116130 AGCAAAGTCA
* * * * *
1116140 ATCTTAAGCCTTCACTAAAGAGTAGTGAAGCAAACC
1 ATCTTAAGCATGCACCAAAGAATAATGAAGCAAACC
*
1116176 GTCTTAAGCATGCACCAAAGAATAATGAAGCAAACC
1 ATCTTAAGCATGCACCAAAGAATAATGAAGCAAACC
1116212 ATCTT
1 ATCTT
1116217 GTGTCTTCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (36 bp):
ATCTTAAGCATGCACCAAAGAATAATGAAGCAAACC
Found at i:1116770 original size:54 final size:54
Alignment explanation
Indices: 1116630--1117586 Score: 1260
Period size: 54 Copynumber: 17.9 Consensus size: 54
1116620 AGTGAAGCAA
* * * * *
1116630 AAGAAGATTTTCGAGTTCCAAACTCCCTAGAGAAAAAAGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
1116684 AAG-A-TTGTTCGAGTTTCATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTG
* * ** * * *
1116736 AAGAAGAGGTACGAGTTTTATACTCCTTAAAGAAAGAGGGAGCGAACCAGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
1116790 AAGAAGATGTCCGAGTTCTATACTCCCTAGAGAAAGAGGAAGCGAGCCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
1116844 AAGAAAATGTCCGAGTTCCATACTCCCTAGAGAAAGA-GGAGCGAACCCATTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
*
1116897 AAGAAGATGTACGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
1116951 AAGAAGATGTCTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
1117005 AAGAAGTTGTCCGAGTTCCATACTCCATAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
1117059 AAGAAGATGTCTGAGTTCCATACTCCCTAGAGAAAGAGGGAACGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
1117113 AAGAAGAT-TTCGAGTTCCATACTTCCTAAAGAAAGAGGGAGCGAACCCG--TG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * *
1117164 -TGAAGATATCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1117217 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
1117271 AAGAAGATGTCCGAGTTCCACACTCCCTAGAGAAAAAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
1117325 AAGAAGATTTCTGAGTTCCATACTTCCTAGAGAAAGAGGGAGCGAACCCG--TG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * * **
1117377 -TGAAGATATCCGAGTTCCATACTCCTTAAAGAAAGAATGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
**
1117430 AAG-AGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * *
1117483 AAGAAGATTTTCGAGTTCCATACTTCCTAGAGAAAGAGGGAGTGAACCCCG--T-
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAA-CCCGTTTG
* * * * *
1117535 AAGAAGATTATTCGAGTTCTATACTGCCTGAAAGAAAGAGGGAGCGAACCCG
1 AAGAAGA-TGTCCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCG
1117587 ATTGTTGAAG
Statistics
Matches: 798, Mismatches: 89, Indels: 33
0.87 0.10 0.04
Matches are distributed among these distances:
50 6 0.01
51 80 0.10
52 52 0.07
53 159 0.20
54 497 0.62
55 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (54 bp):
AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
Found at i:1117284 original size:266 final size:264
Alignment explanation
Indices: 1116632--1117586 Score: 1237
Period size: 266 Copynumber: 3.6 Consensus size: 264
1116622 TGAAGCAAAA
* * * * * *
1116632 GAAGATTTTCGAGTTCCAAACTCCCTAGAGAAAAAAGGAGCGAACCCGTTTGAAG-A-TTGTTCG
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCG
* * * **
1116695 AGTTTCATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGAGGTACGAGTTTTATAC
66 AGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCCATAC
* * *
1116759 TCCTTAAAGAAAGAGGGAGCGAACCAGTTTGAAGAAGATGTCCGAGTTCTATACTCCCTAGAGAA
130 TCC-TAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTGAGTTCCATACTCCCTAGAGAA
* * *
1116824 AGA-GGAAGCGAGCCCGTTTGAAGAAAATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGAGCGA
194 AGAGGGAA-CGAACCCGTTTGAAGAAAAT-TCCGAGTTCCATACTTCCTAAAGAAAGAGGAGCGA
* *
1116888 ACCCATTTGAA
257 ACCC--GTG-T
* *
1116899 GAAGATGTACGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTG
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCG
* * *
1116964 AGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGAAGAAGTTGTCCGAGTTCCATACT
66 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCCATACT
*
1117029 CCATAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTGAGTTCCATACTCCCTAGAGAAA
131 CC-TAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTGAGTTCCATACTCCCTAGAGAAA
* *
1117094 GAGGGAACGAACCCGTTTGAAGAAGATTTCGAGTTCCATACTTCCTAAAGAAAGAGGGAGCGAAC
195 GAGGGAACGAACCCGTTTGAAGAAAATTCCGAGTTCCATACTTCCTAAAGAAAGA-GGAGCGAAC
1117159 CCGTGT
259 CCGTGT
* * * *
1117165 GAAGATATCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTCCG
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCG
*
1117230 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCCACACT
66 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCCATACT
* * * *
1117295 CCCTAGAGAAAAAGGGAGCGAACCCGTTTGAAGAAGATTTCTGAGTTCCATACTTCCTAGAGAAA
131 -CCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTGAGTTCCATACTCCCTAGAGAAA
* * * *
1117360 GAGGGAGCGAACCCGTGTGAAG-ATA-TCCGAGTTCCATAC-TCCTTAAAGAAAGAATGAGCGAA
195 GAGGGAACGAACCCGTTTGAAGAAAATTCCGAGTTCCATACTTCC-TAAAGAAAG-AGGAGCGAA
*
1117422 CCCGTTT
258 CCCGTGT
* * *
1117429 GAAGAGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTT
1 G-A-AGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTC
* * * * *
1117494 CGAGTTCCATACTTCCTAGAGAAAGAGGGAGTGAACCCCG--T-AAGAAGATTATTCGAGTTCTA
64 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAA-CCCGTTTGAAGAAGA-TGTCCGAGTTCCA
1117556 TACTGCCTGAAAGAAAGAGGGAGCGAACCCG
127 TACT-CCT-AAAGAAAGAGGGAGCGAACCCG
1117587 ATTGTTGAAG
Statistics
Matches: 613, Mismatches: 62, Indels: 27
0.87 0.09 0.04
Matches are distributed among these distances:
263 3 0.00
264 43 0.07
265 21 0.03
266 307 0.50
267 58 0.09
268 26 0.04
269 150 0.24
270 5 0.01
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (264 bp):
GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCG
AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCCATACT
CCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTGAGTTCCATACTCCCTAGAGAAAG
AGGGAACGAACCCGTTTGAAGAAAATTCCGAGTTCCATACTTCCTAAAGAAAGAGGAGCGAACCC
GTGT
Found at i:1117706 original size:55 final size:55
Alignment explanation
Indices: 1117537--1118020 Score: 622
Period size: 55 Copynumber: 8.8 Consensus size: 55
1117527 AACCCCGTAA
* * *
1117537 GAAGATTATTCGAGT-TCTATACTGC-CTGAAAGAAAGAGGGAGC-GAACCCGATTGTT
1 GAAGATTGTTCGAGTCT-TATACT-CTCTG-AAGAAATAGGGAGCAG-ACACGATTGTT
* * *
1117593 GAAGATTATTCGAGTCTTATACTCTCTCTGAAGAAATAGGGAGTAGACACGACTGTT
1 GAAGATTGTTCGAGTCTTATA--CTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
*
1117650 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* * *
1117705 GAAGATTGTTCGAGTCTTATACTCTTTGAAGGAATAGGGAGCGGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
*
1117760 GAAGATTGTTCGAGTCTTATACTCTCTGAATG-AATAGAGAGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAA-GAAATAGGGAGCAGACACGATTGTT
* * * * * *
1117815 GAAGATTGTTTGAGTCTTATACTTTCTGAAGGAATAGGGAGAAAACACGGTTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* *
1117870 GAAGGTTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* * *
1117925 GAAGATTGTTCGAGTCTTATACTCTTTGAAGGAATAGGGAGCGGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* *
1117980 GAAGA-TGTTCGAGT-TCTATACT-TCCTAAAGAAAGAGGGAGC
1 GAAGATTGTTCGAGTCT-TATACTCT-CTGAAGAAATAGGGAGC
1118021 GAACCCGATT
Statistics
Matches: 385, Mismatches: 34, Indels: 20
0.88 0.08 0.05
Matches are distributed among these distances:
53 2 0.01
54 29 0.08
55 285 0.74
56 20 0.05
57 43 0.11
58 6 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
Found at i:1118082 original size:54 final size:53
Alignment explanation
Indices: 1116630--1118081 Score: 950
Period size: 54 Copynumber: 26.9 Consensus size: 53
1116620 AGTGAAGCAA
* * * * *
1116630 AAGAAGATTTTCGAGTTCCAAACTCCCTAGAGAAAAAAGGAGCGAACCCGTTT
1 AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
*
1116683 --GAAGATTGTTCGAGTT-TCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT
1 AAGAAGATT-TTCGAGTTCT-ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
** * * * *
1116735 GAAGAAGAGGTACGAGTTTTATACTCCTTAAAGAAAGAGGGAGCGAACCAGTTT
1 -AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * * *
1116789 GAAGAAGATGTCCGAGTTCTATACTCCCTAGAGAAAGAGGAAGCGAGCCCGTTT
1 -AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * * * *
1116843 GAAGAAAATGTCCGAGTTCCATACTCCCTAGAGAAAGA-GGAGCGAACCCATTT
1 -AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * *
1116896 GAAGAAGATGTACGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
1 -AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * *
1116950 GAAGAAGA-TGTCTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTT
1 -AAGAAGATTTTC-GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * *
1117004 GAAGAAG-TTGTCCGAGTTCCATACTCCATAGAGAAAGAGGGAGCGAACCCGTTT
1 -AAGAAGATT-TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * *
1117058 GAAGAAGA-TGTCTGAGTTCCATACTCCCTAGAGAAAGAGGGAACGAACCCGTTT
1 -AAGAAGATTTTC-GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * *
1117112 GAAGAAGA-TTTCGAGTTCCATACTTCCTAAAGAAAGAGGGAGCGAACCCGTGT
1 -AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * *
1117165 --GAAGATATCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTT
1 AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * *
1117216 GAAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
1 -AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * * * *
1117270 GAAGAAGATGTCCGAGTTCCACACTCCCTAGAGAAAAAGGGAGCGAACCCGTTT
1 -AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * *
1117324 GAAGAAGA-TTTCTGAGTTCCATACTTCCTAGAGAAAGAGGGAGCGAACCCGTGT
1 -AAGAAGATTTTC-GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * * **
1117378 --GAAGATATCCGAGTTCCATACTCCTTAAAGAAAGAATGAGCGAACCCGTTT
1 AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* *
1117429 GAAG-AGATGTTT-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
1 -AAGAAGAT-TTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * *
1117482 GAAGAAGATTTTCGAGTTCCATACTTCCTAGAGAAAGAGGGAGTGAACCCCG--T
1 -AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAA-CCCGTTT
*
1117535 AAGAAGATTATTCGAGTTCTATACTGCCTGAAAGAAAGAGGGAGCGAACCCGATTGT
1 AAGAAGATT-TTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCG-TT-T
* * * * *
1117592 -TGAAGATTATTCGAG-TCTTATACTCTCTCTGAAGAAATAGGGAG-TAGACACGACTGTT
1 AAGAAGATT-TTCGAGTTC-TATACTC-C-CTAAAGAAAGAGGGAGCGA-ACCCG--T-TT
* * * *
1117650 --GAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGAGC-AGACACGATCGTT
1 AAGAAGATT-TTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGCGA-ACCCG-T--TT
** * * * * *
1117705 --GAAGATTGTTCGAG-TCTTATACTCTTTGAAGGAATAGGGAGCGGACACGATTGT
1 AAGAAGATT-TTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TT-T
* * * *
1117759 -TGAAGATTGTTCGAG-TCTTATACTCTCTGAATGAATAGA--GAGC-AGACACGATTGT
1 AAGAAGATT-TTCGAGTTC-TATACTCCCT-AAAGAA-AGAGGGAGCGA-ACCCG-TT-T
* * ** * * * ** *
1117814 -TGAAGATTGTTTGAG-TCTTATACTTTCTGAAGGAATAGGGAGAAAACACGGTTGT
1 AAGAAGATT-TTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGCGAAC-CCGTT-T
* * * * * * *
1117869 -TGAAGGTTGTTCGAG-TCTTATACTCTCTGAAGGAATAGGGAGC-AGACACGATTGT
1 AAGAAGATT-TTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGCGA-ACCCG-TT-T
* ** * * * * *
1117924 -TGAAGATTGTTCGAG-TCTTATACTCTTTGAAGGAATAGGGAGCGGACACGATTGT
1 AAGAAGATT-TTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TT-T
* * *
1117979 -TGAAGATGTTCGAGTTCTATACTTCCTAAAGAAAGAGGGAGCGAACCCGATTT
1 AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTT
* *
1118032 CAGAAGATTTGCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG
1 AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG
1118082 AAGGCATAAG
Statistics
Matches: 1210, Mismatches: 135, Indels: 107
0.83 0.09 0.07
Matches are distributed among these distances:
50 5 0.00
51 85 0.07
52 48 0.04
53 163 0.13
54 569 0.47
55 266 0.22
56 26 0.02
57 43 0.04
58 4 0.00
59 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (53 bp):
AAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
Found at i:1118093 original size:54 final size:53
Alignment explanation
Indices: 1117980--1118112 Score: 169
Period size: 54 Copynumber: 2.5 Consensus size: 53
1117970 CACGATTGTT
* ***
1117980 GAAGATGTTCGAGTTCTATACTTCCTAAAGAAAGAGGGAGCGAACCCGATTTCA
1 GAAGAT-TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGAAGGCA
1118034 GAAGATTTGCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGAAGGCA
1 GAAGATTT-CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGAAGGCA
* *
1118088 TAAGATTGTTCGAGTTC-CTACTCCC
1 GAAGA-T-TTCGAGTTCTATACTCCC
1118113 AATCTTCAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
53 2 0.03
54 58 0.83
55 8 0.11
56 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (53 bp):
GAAGATTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGAAGGCA
Found at i:1118447 original size:16 final size:16
Alignment explanation
Indices: 1118423--1118456 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1118413 TATCGCCGAC
*
1118423 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
1118439 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
1118455 CG
1 CG
1118457 TGAATAGTAA
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:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:1123023 original size:16 final size:16
Alignment explanation
Indices: 1122999--1123032 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1122989 TATCGCCGAC
*
1122999 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
1123015 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
1123031 CG
1 CG
1123033 TGAATAGTAA
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:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:1123514 original size:24 final size:24
Alignment explanation
Indices: 1123487--1123533 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
1123477 TGTAAAACAT
* *
1123487 TTTTCAAAGAAACATTTATCAAAC
1 TTTTAAAAAAAACATTTATCAAAC
* *
1123511 TTTTAAAAAAAATATTTTTCAAA
1 TTTTAAAAAAAACATTTATCAAA
1123534 ATTGATTGCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (24 bp):
TTTTAAAAAAAACATTTATCAAAC
Found at i:1130357 original size:19 final size:19
Alignment explanation
Indices: 1130312--1130363 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
1130302 AATGTGCCTT
* *
1130312 TAGTATCGGTACTGACCCC
1 TAGTATCGATACCGACCCC
1130331 TGAGTATCGATACCGACCCC
1 T-AGTATCGATACCGACCCC
*
1130351 TAGTATCAATACC
1 TAGTATCGATACC
1130364 ATTTTTAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (19 bp):
TAGTATCGATACCGACCCC
Found at i:1131263 original size:21 final size:21
Alignment explanation
Indices: 1131233--1131281 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1131223 GTTTCTAGAG
1131233 AAGAAGATGAGAGCTTGGGAA
1 AAGAAGATGAGAGCTTGGGAA
* *
1131254 AAGAATATGAGAGCTTGGGAG
1 AAGAAGATGAGAGCTTGGGAA
1131275 AAGAAGA
1 AAGAAGA
1131282 CAAGGTGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.37, T:0.14
Consensus pattern (21 bp):
AAGAAGATGAGAGCTTGGGAA
Found at i:1133748 original size:68 final size:68
Alignment explanation
Indices: 1133670--1134120 Score: 511
Period size: 68 Copynumber: 6.7 Consensus size: 68
1133660 TAATTTTTTA
* * * *
1133670 GTCACTTATATATTATCTAATTTATATTTTGGTCGCTCGATTATTATTTAAGATAAACTACTTAT
1 GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTTAAGGTAAACTACCTAT
1133735 TTG
66 TTG
* * * * * *
1133738 GTCACTTATATATTATCTAATTTACGTTTTGATCGCTTGACTATTATTT-AGAGTAAACAACCTA
1 GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTTAAG-GTAAACTACCTA
*
1133802 TTTA
65 TTTG
* * * *
1133806 GTCACTTGTATATTTTTTAATTTATGTTTTGGTCACTCGATTATTATTT-AGGTAAACTACATAT
1 GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTTAAGGTAAACTACCTAT
1133870 TTG
66 TTG
* * * *
1133873 GTCACTTATATATTATCAAATTTATGTTTTGGTTACTCGACTATTATTTAGGGTAAACTACCTAT
1 GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTTAAGGTAAACTACCTAT
1133938 TTG
66 TTG
* * * * * * *
1133941 GTCACTTAAATATTTTCTTATTTTTATTTTGGTCACTCGATTATTATTTAGGGTAAACTATCTAT
1 GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTTAAGGTAAACTACCTAT
1134006 TTG
66 TTG
** ** * * * *
1134009 GTCACTTATATATTATCTAA--TAT-AATTCATAAAT--ATTTTTATTTAGGGTAAACTACCTAT
1 GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTTAAGGTAAACTACCTAT
1134069 TTG
66 TTG
* * *
1134072 GTCGCTTATATATTATCTAATTTATGTTTTGATCACTCGATAATTATTT
1 GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTT
1134121 TTTTCAAAAT
Statistics
Matches: 319, Mismatches: 57, Indels: 14
0.82 0.15 0.04
Matches are distributed among these distances:
63 46 0.14
65 8 0.03
66 8 0.03
67 58 0.18
68 199 0.62
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (68 bp):
GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTTAAGGTAAACTACCTAT
TTG
Found at i:1133929 original size:135 final size:133
Alignment explanation
Indices: 1133643--1134120 Score: 550
Period size: 135 Copynumber: 3.6 Consensus size: 133
1133633 CGAGATCTCA
* * ** * *
1133643 TATTTTTTAGGGTAAATTAATTTTTTAGTCACTTATATATTATCTAATTTATATTTTGGTCGCTC
1 TATTATTTAGGGTAAACTACCTATTTAGTCACTTATATATTATCTAATTTATATTTTGGTCACTC
* * **
1133708 GATTATTATTTAAGATAAACTACTTATTTGGTCACTTATATATTATCTAATTTACGTTTTGATCG
66 GATTATTATTT-AGGTAAACTAC-TATTTGGTCACTTATATATTATCTAATTTATGTTTTGATAA
1133773 CTTGAC
129 C-TGAC
* * * * * *
1133779 TATTATTTAGAGTAAACAACCTATTTAGTCACTTGTATATTTTTTAATTTATGTTTTGGTCACTC
1 TATTATTTAGGGTAAACTACCTATTTAGTCACTTATATATTATCTAATTTATATTTTGGTCACTC
* * *
1133844 GATTATTATTTAGGTAAACTACATATTTGGTCACTTATATATTATCAAATTTATGTTTTGGTTAC
66 GATTATTATTTAGGTAAACTAC-TATTTGGTCACTTATATATTATCTAATTTATGTTTTGATAAC
1133909 TCGAC
130 T-GAC
* * * * *
1133914 TATTATTTAGGGTAAACTACCTATTTGGTCACTTAAATATTTTCTTATTTTTATTTTGGTCACTC
1 TATTATTTAGGGTAAACTACCTATTTAGTCACTTATATATTATCTAATTTATATTTTGGTCACTC
** *
1133979 GATTATTATTTAGGGTAAACTATCTATTTGGTCACTTATATATTATCTAA--TAT-AATTCATAA
66 GATTATTATTTA-GGTAAACTA-CTATTTGGTCACTTATATATTATCTAATTTATGTTTTGATAA
* *
1134041 AT-AT
129 CTGAC
* * * * *
1134045 TTTTATTTAGGGTAAACTACCTATTTGGTCGCTTATATATTATCTAATTTATGTTTTGATCACTC
1 TATTATTTAGGGTAAACTACCTATTTAGTCACTTATATATTATCTAATTTATATTTTGGTCACTC
*
1134110 GATAATTATTT
66 GATTATTATTT
1134121 TTTTCAAAAT
Statistics
Matches: 294, Mismatches: 45, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
131 68 0.23
133 5 0.02
134 4 0.01
135 118 0.40
136 98 0.33
137 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.49
Consensus pattern (133 bp):
TATTATTTAGGGTAAACTACCTATTTAGTCACTTATATATTATCTAATTTATATTTTGGTCACTC
GATTATTATTTAGGTAAACTACTATTTGGTCACTTATATATTATCTAATTTATGTTTTGATAACT
GAC
Found at i:1136895 original size:36 final size:35
Alignment explanation
Indices: 1136821--1136996 Score: 208
Period size: 36 Copynumber: 4.9 Consensus size: 35
1136811 AGATGAACAA
* ** * * *
1136821 TTGAATCGAAAGTACTAACGCTTCTTTCCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTACGTTCAC
* * * *
1136856 TTGAATCGAAAGTGTCGGTGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTACGTTC-AC
1136892 TTGAATCGAAAGTGCCGATGCTTCCTTACGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTACGTTCAC
1136927 TTTGAATCGAAAGTGCCGATGCTTCCTTACGTTCAC
1 -TTGAATCGAAAGTGCCGATGCTTCCTTACGTTCAC
* * *
1136963 TTTGAATCGAAAGTGCTGATGCTTTCTTTCGTTC
1 -TTGAATCGAAAGTGCCGATGCTTCCTTACGTTC
1136997 TTCTTATTCA
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
35 26 0.21
36 97 0.79
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.37
Consensus pattern (35 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTACGTTCAC
Found at i:1144005 original size:21 final size:21
Alignment explanation
Indices: 1143981--1144022 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1143971 TAATGTCATC
1143981 GATTTGTATTCTCTCCATGTA
1 GATTTGTATTCTCTCCATGTA
1144002 GATTTGTATTCTCTCCATGTA
1 GATTTGTATTCTCTCCATGTA
1144023 AGTCTATGTG
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:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (21 bp):
GATTTGTATTCTCTCCATGTA
Done.