Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 133 of 208
Found at i:43587909 original size:16 final size:16
Alignment explanation
Indices: 43587890--43587941 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
43587880 GATTTGCTAT
* * *
43587890 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
43587906 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
43587922 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
43587938 TACA
1 TACA
43587942 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:43599114 original size:20 final size:20
Alignment explanation
Indices: 43599055--43599129 Score: 55
Period size: 20 Copynumber: 3.5 Consensus size: 20
43599045 CTTAATAATG
43599055 TTATTTTTAATTAATATAATAAAT
1 TTATTTTT-ATTAAT-T--TAAAT
* *
43599079 TTAGTTTTGAAT-ATTTATAAT
1 TTA-TTTTTATTAATTTA-AAT
*
43599100 TT-TTTTTATTAATTTAACT
1 TTATTTTTATTAATTTAAAT
43599119 TTATTTTTATT
1 TTATTTTTATT
43599130 TTAAAATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
19 10 0.24
20 15 0.36
21 5 0.12
22 1 0.02
23 2 0.05
24 5 0.12
25 4 0.10
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (20 bp):
TTATTTTTATTAATTTAAAT
Found at i:43610837 original size:43 final size:44
Alignment explanation
Indices: 43610787--43610876 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 44
43610777 TACCCTTATT
* *
43610787 TATATTAACTATTTAAAATGTATTTAAAAATT-AGATTAATTTA
1 TATATTAACTACTTAAAATATATTTAAAAATTGAGATTAATTTA
* *
43610830 TATATTAACTACTTGAAATATATTTAAAATTTGAGATTAATTTA
1 TATATTAACTACTTAAAATATATTTAAAAATTGAGATTAATTTA
43610874 TAT
1 TAT
43610877 TTCATGTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 28 0.67
44 14 0.33
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (44 bp):
TATATTAACTACTTAAAATATATTTAAAAATTGAGATTAATTTA
Found at i:43613406 original size:21 final size:21
Alignment explanation
Indices: 43613382--43613441 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
43613372 AATTTGATTA
43613382 TTGATAATTATTTTATTTAAT
1 TTGATAATTATTTTATTTAAT
43613403 TTGA-AGATTATTATGT-TTTAAT
1 TTGATA-ATTATT-T-TATTTAAT
* * *
43613425 TTCATCATTATATTATT
1 TTGATAATTATTTTATT
43613442 AGTGAATTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
20 2 0.06
21 13 0.42
22 15 0.48
23 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.58
Consensus pattern (21 bp):
TTGATAATTATTTTATTTAAT
Found at i:43615504 original size:21 final size:22
Alignment explanation
Indices: 43615476--43615525 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
43615466 AACAATATCT
*
43615476 CCACTAAATCCTTAACAA-CCC
1 CCACTAAATCCTCAACAATCCC
*
43615497 CTACTAAATCCTCAACAATCCC
1 CCACTAAATCCTCAACAATCCC
43615519 CCACTAA
1 CCACTAA
43615526 TGCAAAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.20
Consensus pattern (22 bp):
CCACTAAATCCTCAACAATCCC
Found at i:43620834 original size:17 final size:17
Alignment explanation
Indices: 43620807--43620847 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
43620797 TCAAACAATC
43620807 AAACAATTCATTT-ATA
1 AAACAATTCATTTCATA
43620823 AAACACATTCATTTCATA
1 AAACA-ATTCATTTCATA
*
43620841 AATCAAT
1 AAACAAT
43620848 CAAATTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (17 bp):
AAACAATTCATTTCATA
Found at i:43625726 original size:12 final size:14
Alignment explanation
Indices: 43625684--43625733 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
43625674 AAATTATTAT
* *
43625684 TTAATTAATTAAAA
1 TTAAATAATTGAAA
43625698 TTAAATAATTG-AA
1 TTAAATAATTGAAA
43625711 TTAAA-AA-TGAAA
1 TTAAATAATTGAAA
43625723 TTAAATTAATT
1 TTAAA-TAATT
43625734 AGTCATTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 2 0.07
12 9 0.30
13 7 0.23
14 11 0.37
15 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (14 bp):
TTAAATAATTGAAA
Found at i:43626302 original size:10 final size:10
Alignment explanation
Indices: 43626289--43626425 Score: 58
Period size: 9 Copynumber: 13.9 Consensus size: 10
43626279 ATTTTTTTTA
*
43626289 ATTTTAAAAT
1 ATTTTTAAAT
*
43626299 ATTTTTACAT
1 ATTTTTAAAT
*
43626309 ACTTTTTTAAT
1 A-TTTTTAAAT
*
43626320 -TTTTTTAA-
1 ATTTTTAAAT
43626328 ATTTTTAAAT
1 ATTTTTAAAT
43626338 ATTTTTAAAAT
1 ATTTTT-AAAT
*
43626349 ACTTTTTTTAAT
1 A--TTTTTAAAT
*
43626361 -TTTTT-TA-
1 ATTTTTAAAT
*
43626368 ATTTTAAAAT
1 ATTTTTAAAT
*
43626378 ACTTTTTTTTAAT
1 A---TTTTTAAAT
*
43626391 -TTTTT-TA-
1 ATTTTTAAAT
*
43626398 ATTTTAAAAT
1 ATTTTTAAAT
43626408 ATTTTTAAA-
1 ATTTTTAAAT
43626417 ATTTTTAAA
1 ATTTTTAAA
43626426 ATAAAAATGG
Statistics
Matches: 97, Mismatches: 15, Indels: 31
0.68 0.10 0.22
Matches are distributed among these distances:
8 10 0.10
9 36 0.37
10 24 0.25
11 12 0.12
12 3 0.03
13 12 0.12
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTTTAAAT
Found at i:43626331 original size:29 final size:28
Alignment explanation
Indices: 43626282--43626422 Score: 104
Period size: 30 Copynumber: 5.2 Consensus size: 28
43626272 TATATTTATT
*
43626282 TTTTTTAATTTTAAAATATTTTTACATA
1 TTTTTTAATTTTAAAATATTTTTAAATA
**
43626310 CTTTTTTAATTTTTTTAA-ATTTTTAAATA
1 -TTTTTTAA-TTTTAAAATATTTTTAAATA
* *
43626339 -TTTTTAA----AATACT-TTTTTTAAT-
1 TTTTTTAATTTTAA-AATATTTTTAAATA
*
43626361 TTTTTTAATTTTAAAATACTTTTTTTTAAT-
1 TTTTTTAATTTTAAAATA---TTTTTAAATA
43626391 TTTTTTAATTTTAAAATATTTTTAAA-A
1 TTTTTTAATTTTAAAATATTTTTAAATA
43626418 TTTTT
1 TTTTT
43626423 AAAATAAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 28
0.71 0.07 0.22
Matches are distributed among these distances:
23 16 0.18
26 2 0.02
27 21 0.23
29 18 0.20
30 33 0.37
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTTTTAATTTTAAAATATTTTTAAATA
Found at i:43626335 original size:40 final size:40
Alignment explanation
Indices: 43626276--43626384 Score: 159
Period size: 41 Copynumber: 2.7 Consensus size: 40
43626266 AATAAATATA
* *
43626276 TTTATTTTTTTTAATTTTAAAATATTTTT-ACATAC-TTT
1 TTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTT
*
43626314 TTTAATTTTTTTAAATTTTTAAATATTTTTAAAATACTTTT
1 TTTAATTTTTTT-AATTTTAAAATATTTTTAAAATACTTTT
43626355 TTTAATTTTTTTAATTTTAAAATACTTTTT
1 TTTAATTTTTTTAATTTTAAAATA-TTTTT
43626385 TTTAATTTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
38 11 0.17
39 16 0.25
40 16 0.25
41 20 0.32
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (40 bp):
TTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTT
Found at i:43626371 original size:79 final size:79
Alignment explanation
Indices: 43626276--43626428 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 79
43626266 AATAAATATA
* **
43626276 TTTATTTTTTTTAATTTTAAAATA-TTTTTACAT-ACTTTTTTAATTTTTTTAA-ATTTTTAAAT
1 TTTAATTTTTTTAATTTTAAAATACTTTTT-CATAACTTTTTTAA-TTTTAAAATATTTTTAAA-
43626338 ATTTTTAAAATACTTTT
63 ATTTTTAAAATACTTTT
** *
43626355 TTTAATTTTTTTAATTTTAAAATACTTTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATT
1 TTTAATTTTTTTAATTTTAAAATACTTTTTCATAACTTTTTTAATTTTAAAATATTTTTAAAATT
43626420 TTTAAAATA
66 TTTAAAATA
43626429 AAAATGGGCC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 42 0.65
80 23 0.35
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (79 bp):
TTTAATTTTTTTAATTTTAAAATACTTTTTCATAACTTTTTTAATTTTAAAATATTTTTAAAATT
TTTAAAATACTTTT
Found at i:43626372 original size:30 final size:29
Alignment explanation
Indices: 43626340--43626422 Score: 132
Period size: 30 Copynumber: 2.9 Consensus size: 29
43626330 TTTTAAATAT
43626340 TTTTAAAATACTTTTTTTAATTTTTTTAA
1 TTTTAAAATACTTTTTTTAATTTTTTTAA
43626369 TTTTAAAATACTTTTTTTTAATTTTTTTAA
1 TTTTAAAATAC-TTTTTTTAATTTTTTTAA
**
43626399 TTTTAAAATA-TTTTTAAAATTTTT
1 TTTTAAAATACTTTTTTTAATTTTT
43626423 AAAATAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
28 12 0.24
29 11 0.22
30 28 0.55
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTAAAATACTTTTTTTAATTTTTTTAA
Found at i:43626383 original size:17 final size:17
Alignment explanation
Indices: 43626362--43626415 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
43626352 TTTTTTAATT
43626362 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
* *
43626379 CTTTT--TTTT--AATT
1 TTTTTAATTTTAAAATA
43626392 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
43626409 TTTTTAA
1 TTTTTAA
43626416 AATTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 7 0.24
15 8 0.28
17 14 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTAATTTTAAAATA
Found at i:43626394 original size:39 final size:38
Alignment explanation
Indices: 43626276--43626402 Score: 139
Period size: 39 Copynumber: 3.2 Consensus size: 38
43626266 AATAAATATA
* * *
43626276 TTTATTTTTTTTAATTTTAAAATA-TTTTTACATACTTT
1 TTTAATTTTTTTAATTTTAAAATATTTTTTATA-ATTTT
* * *
43626314 TTTAATTTTTTTAAATTTTTAAATATTTTTAAAATACTTTT
1 TTTAATTTTTTT-AATTTTAAAATATTTTT--TATAATTTT
*
43626355 TTTAATTTTTTTAATTTTAAAATACTTTTTTTTAATTTT
1 TTTAATTTTTTTAATTTTAAAATA-TTTTTTATAATTTT
43626394 TTTAATTTT
1 TTTAATTTT
43626403 AAAATATTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
38 11 0.15
39 26 0.35
40 15 0.20
41 20 0.27
42 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (38 bp):
TTTAATTTTTTTAATTTTAAAATATTTTTTATAATTTT
Found at i:43636818 original size:20 final size:20
Alignment explanation
Indices: 43636780--43636818 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43636770 TGGAGCAGGA
*
43636780 ATATCGATACCGTAGGAAAT
1 ATATCGATACCGTAAGAAAT
*
43636800 ATATCGATACCTTAAGAAA
1 ATATCGATACCGTAAGAAA
43636819 AGAATCTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (20 bp):
ATATCGATACCGTAAGAAAT
Found at i:43641042 original size:16 final size:16
Alignment explanation
Indices: 43641021--43641078 Score: 70
Period size: 16 Copynumber: 3.8 Consensus size: 16
43641011 CTTAATCACT
43641021 TTAATATTAAATGTAA
1 TTAATATTAAATGTAA
43641037 TTAATATTAAATGT-A
1 TTAATATTAAATGTAA
43641052 --AATATTAAAT-TACA
1 TTAATATTAAATGTA-A
43641066 TTTAATATTAAAT
1 -TTAATATTAAAT
43641079 CCATTAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 1 0.03
13 10 0.27
14 1 0.03
15 1 0.03
16 14 0.38
17 10 0.27
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (16 bp):
TTAATATTAAATGTAA
Found at i:43641089 original size:17 final size:17
Alignment explanation
Indices: 43641036--43641078 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
43641026 ATTAAATGTA
*
43641036 ATTAATATTAAATGTAAAT
1 ATTAA-ATTACAT-TAAAT
*
43641055 ATTAAATTACATTTAAT
1 ATTAAATTACATTAAAT
43641072 ATTAAAT
1 ATTAAAT
43641079 CCATTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.50
18 6 0.27
19 5 0.23
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTAAATTACATTAAAT
Found at i:43644452 original size:18 final size:18
Alignment explanation
Indices: 43644429--43644478 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
43644419 TTGGGTTTGT
*
43644429 TTGGTTAGACGTGTGGTA
1 TTGGTTAGACGTGTAGTA
* *
43644447 TTGGTTAGATGTTTAGTA
1 TTGGTTAGACGTGTAGTA
*
43644465 TTGGTTAGAGGTGT
1 TTGGTTAGACGTGT
43644479 TTAAGGGTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.18, C:0.02, G:0.36, T:0.44
Consensus pattern (18 bp):
TTGGTTAGACGTGTAGTA
Found at i:43645453 original size:61 final size:61
Alignment explanation
Indices: 43645385--43645505 Score: 143
Period size: 61 Copynumber: 2.0 Consensus size: 61
43645375 TTGGTCTAAT
** * * * * * *
43645385 AACAAATTTGGCCCTTAATGTTTACCCATTTTCTTAATTTAGTGTTGATTTTAAAATTTTC
1 AACAAATTTAACCCTCAATATTTACACAATTTCTTAATTTAGTCTTGATTCTAAAATTTTC
* * *
43645446 AACAAATTTAACCCTCGATATTTACACAATTTGTTAATTTGGTCTTGATTCTAAAATTTT
1 AACAAATTTAACCCTCAATATTTACACAATTTCTTAATTTAGTCTTGATTCTAAAATTTT
43645506 AAAAATATAA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (61 bp):
AACAAATTTAACCCTCAATATTTACACAATTTCTTAATTTAGTCTTGATTCTAAAATTTTC
Found at i:43645873 original size:12 final size:12
Alignment explanation
Indices: 43645856--43645880 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43645846 TTAAATTAAC
43645856 AAAAAAAATTCG
1 AAAAAAAATTCG
43645868 AAAAAAAATTCG
1 AAAAAAAATTCG
43645880 A
1 A
43645881 TGATGCGCTA
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:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:43654977 original size:17 final size:17
Alignment explanation
Indices: 43654951--43654984 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
43654941 TTCTCTGTGA
43654951 ATTTCCATATC-ATTTT
1 ATTTCCATATCAATTTT
43654967 ATTTACCATATCAATTTT
1 ATTT-CCATATCAATTTT
43654985 TTGTTCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTCCATATCAATTTT
Found at i:43660854 original size:22 final size:22
Alignment explanation
Indices: 43660826--43660887 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
43660816 TTAAACGTTC
43660826 TTCTTTC-CTTCCTCTTTTCATT
1 TTCTTTCTCTTCCT-TTTTCATT
* *
43660848 TTCTTTCTTTTTCCTTTTTCCTT
1 TTCTTTC-TCTTCCTTTTTCATT
*
43660871 TTCTTTCTTTTTCCTTT
1 TTCTTTC-TCTTCCTTT
43660888 ATCTTCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 7 0.19
23 24 0.67
24 5 0.14
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (22 bp):
TTCTTTCTCTTCCTTTTTCATT
Found at i:43660898 original size:17 final size:16
Alignment explanation
Indices: 43660861--43660942 Score: 62
Period size: 16 Copynumber: 5.0 Consensus size: 16
43660851 TTTCTTTTTC
43660861 CTTTTTCCTTTTCTTT
1 CTTTTTCCTTTTCTTT
43660877 CTTTTTCCTTTATCTTCT
1 CTTTTTCCTTT-TCTT-T
* *
43660895 TTTTTTCATTTT-TATT
1 CTTTTTCCTTTTCT-TT
*
43660911 -TTTCTT-CTCTTCTTTT
1 CTTT-TTCCTTTTC-TTT
*
43660927 CTTTTTCCTCTTCTTT
1 CTTTTTCCTTTTCTTT
43660943 GTCGACTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
15 6 0.11
16 22 0.41
17 16 0.30
18 10 0.19
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (16 bp):
CTTTTTCCTTTTCTTT
Found at i:43667654 original size:15 final size:16
Alignment explanation
Indices: 43667634--43667666 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
43667624 ATGGGTATGG
*
43667634 TAAAATCTAAT-ATTA
1 TAAAATCAAATAATTA
43667649 TAAAATCAAATAATTA
1 TAAAATCAAATAATTA
43667665 TA
1 TA
43667667 TCAAATATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAAATCAAATAATTA
Found at i:43667932 original size:9 final size:9
Alignment explanation
Indices: 43667914--43667958 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
43667904 CGCCAAAAAA
43667914 ATAA-TTTT
1 ATAATTTTT
43667922 ATAATTTTT
1 ATAATTTTT
*
43667931 ATGATTTTT
1 ATAATTTTT
*
43667940 ACAATTTTT
1 ATAATTTTT
*
43667949 ACAATTTTT
1 ATAATTTTT
43667958 A
1 A
43667959 ATTAACAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
8 4 0.12
9 29 0.88
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:43668624 original size:370 final size:370
Alignment explanation
Indices: 43667943--43668677 Score: 1389
Period size: 370 Copynumber: 2.0 Consensus size: 370
43667933 GATTTTTACA
43667943 ATTTTTACAATTTTTAATTAACAATTTGATGCAAGACTCAAGGCCTAAATTCAGGCCCACGGACT
1 ATTTTTACAATTTTTAATTAACAATTTGATGCAAGACTCAAGGCCTAAATTCAGGCCCACGGACT
43668008 TGTTGGTCTTACTCTACCATAAGACCTAATTACGAGGTTGAAAGTGAAGCAAATCAAGTCAAGAC
66 TGTTGGTCTTACTCTACCATAAGACCTAATTACGAGGTTGAAAGTGAAGCAAATCAAGTCAAGAC
43668073 AAAACAAGACTATCCAAGACTTCGTGATGAAAGCCTTAGAAGCACATAAGAGGAAAAAAGAAAAT
131 AAAACAAGACTATCCAAGACTTCGTGATGAAAGCCTTAGAAGCACATAAGAGGAAAAAAGAAAAT
*
43668138 CAAAATTTGAAATCTTGAAATTTTTAGTCCAAGAAACCAATTATTGAAGTCTGTGCATGATGACT
196 CAAAATTTGAAATCTTGAAATTTTTAGTCCAAGAAACCAATTATTGAAGTCTGTGCATAATGACT
43668203 TATAGTAACGAGCTTGAACGAGCCCATTTCTAGAGCGACCATATAATAAGTCCAAGTTTTTGAAA
261 TATAGTAACGAGCTTGAACGAGCCCATTTCTAGAGCGACCATATAATAAGTCCAAGTTTTTGAAA
43668268 ATTGACTCATTGGGATGTCCAAAAGCCCAAAATAAAGTTTTTATG
326 ATTGACTCATTGGGATGTCCAAAAGCCCAAAATAAAGTTTTTATG
*
43668313 ATTTTTACAATTTTTAATTAACAATTTGATGCAAGACTCAAGGCCTAAATTTAGGCCCACGGACT
1 ATTTTTACAATTTTTAATTAACAATTTGATGCAAGACTCAAGGCCTAAATTCAGGCCCACGGACT
* *
43668378 TGTTGGTCTTACTCTACCGTGAGACCTAATTACGAGGTTGAAAGTGAAGCAAATCAAGTCAAGAC
66 TGTTGGTCTTACTCTACCATAAGACCTAATTACGAGGTTGAAAGTGAAGCAAATCAAGTCAAGAC
* *
43668443 AGAACGAGACTATCCAAGACTTCGTGATGAAAGCCTTAGAAGCACATAAGAGGAAAAAAGAAAAT
131 AAAACAAGACTATCCAAGACTTCGTGATGAAAGCCTTAGAAGCACATAAGAGGAAAAAAGAAAAT
43668508 CAAAATTTGAAATCTTGAAATTTTTAGTCCAAGAAACCAATTATTGAAGTCTGTGCATAATGACT
196 CAAAATTTGAAATCTTGAAATTTTTAGTCCAAGAAACCAATTATTGAAGTCTGTGCATAATGACT
* * *
43668573 TATAGTAACGAGCTTGAACGAGCCCGTTTCTAGAGCGACTATATCATAAGTCCAAGTTTTTGAAA
261 TATAGTAACGAGCTTGAACGAGCCCATTTCTAGAGCGACCATATAATAAGTCCAAGTTTTTGAAA
43668638 ATTGACTCATTGGGATGTCCAAAAGCCCAAAATAAAGTTT
326 ATTGACTCATTGGGATGTCCAAAAGCCCAAAATAAAGTTT
43668678 GGAGAAGAAC
Statistics
Matches: 356, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
370 356 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (370 bp):
ATTTTTACAATTTTTAATTAACAATTTGATGCAAGACTCAAGGCCTAAATTCAGGCCCACGGACT
TGTTGGTCTTACTCTACCATAAGACCTAATTACGAGGTTGAAAGTGAAGCAAATCAAGTCAAGAC
AAAACAAGACTATCCAAGACTTCGTGATGAAAGCCTTAGAAGCACATAAGAGGAAAAAAGAAAAT
CAAAATTTGAAATCTTGAAATTTTTAGTCCAAGAAACCAATTATTGAAGTCTGTGCATAATGACT
TATAGTAACGAGCTTGAACGAGCCCATTTCTAGAGCGACCATATAATAAGTCCAAGTTTTTGAAA
ATTGACTCATTGGGATGTCCAAAAGCCCAAAATAAAGTTTTTATG
Found at i:43671532 original size:13 final size:13
Alignment explanation
Indices: 43671514--43671546 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
43671504 TAAAGGCTCG
43671514 CAAGTATAGTCTA
1 CAAGTATAGTCTA
*
43671527 CAAGTATCGTCTA
1 CAAGTATAGTCTA
43671540 CAAGTAT
1 CAAGTAT
43671547 GGTTTATGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (13 bp):
CAAGTATAGTCTA
Found at i:43688125 original size:18 final size:18
Alignment explanation
Indices: 43688102--43688142 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
43688092 CATGTTGCAT
43688102 GCCCATGTGGTCCCACAC-
1 GCCCATGTGG-CCCACACG
*
43688120 GCCCATGTGGCCTACACG
1 GCCCATGTGGCCCACACG
43688138 GCCCA
1 GCCCA
43688143 AAATGGCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.17, C:0.44, G:0.24, T:0.15
Consensus pattern (18 bp):
GCCCATGTGGCCCACACG
Found at i:43689578 original size:20 final size:18
Alignment explanation
Indices: 43689497--43689571 Score: 64
Period size: 20 Copynumber: 4.0 Consensus size: 18
43689487 GATAGTATTT
*
43689497 TATTAATTTATTATTAAA
1 TATTAATTTAATATTAAA
43689515 GTGATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
* *
43689535 T-TAAATTTAATAGATTTAA
1 TATTAATTTAAT--ATTAAA
43689554 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
43689572 GTGATTACGT
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
17 6 0.13
18 7 0.16
19 10 0.22
20 22 0.49
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:43690059 original size:6 final size:6
Alignment explanation
Indices: 43690048--43690079 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
43690038 ATTTTTTAGG
43690048 TCATTT TCATTT TCCATTT TCATTT TCATTT T
1 TCATTT TCATTT T-CATTT TCATTT TCATTT T
43690080 GGAGAAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.66
Consensus pattern (6 bp):
TCATTT
Found at i:43690067 original size:13 final size:12
Alignment explanation
Indices: 43690048--43690079 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
43690038 ATTTTTTAGG
43690048 TCATTTTCATTT
1 TCATTTTCATTT
43690060 TCCATTTTCATTT
1 T-CATTTTCATTT
43690073 TCATTTT
1 TCATTTT
43690080 GGAGAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.66
Consensus pattern (12 bp):
TCATTTTCATTT
Found at i:43703261 original size:61 final size:61
Alignment explanation
Indices: 43703196--43703383 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
43703186 TTATAGTATC
*
43703196 ATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
43703257 ATATATTTTAATTAAAATATATTTA-ATAATAAT-TATG-TTAAATT-A-TATTTTA-TAGTATC
1 ATATATTATGATTTAAGTAAATTCATATAAGAATAT-TGATT--ATTAAGAATTTTATTA-AATT
*
43703316 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
43703377 ATATATT
1 ATATATT
43703384 TTAATTAAAA
Statistics
Matches: 95, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
58 2 0.02
59 32 0.34
60 20 0.21
61 39 0.41
62 2 0.02
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:43703272 original size:18 final size:17
Alignment explanation
Indices: 43703244--43703278 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43703234 ATTATTAAGA
*
43703244 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
43703261 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
43703279 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:43703306 original size:120 final size:120
Alignment explanation
Indices: 43703149--43703418 Score: 497
Period size: 120 Copynumber: 2.2 Consensus size: 120
43703139 TATATTTAGA
*
43703149 AAAATTATATTTAATAATAATTAT-TTCAAATTATATTTTATAGTATCATATATTATGATTTTAG
1 AAAA-TATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATCATATATTATGATTTGAG
43703213 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATT
64 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATT
43703270 AAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTA
1 AAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTA
43703335 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATT
66 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATT
*
43703390 AAAATATATTTAATAATAATTGTGTTAAA
1 AAAATATATTTAATAATAATTATGTTAAA
43703419 ATATGATTAA
Statistics
Matches: 146, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
120 140 0.96
121 6 0.04
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
AAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTA
AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATT
Found at i:43703392 original size:18 final size:17
Alignment explanation
Indices: 43703364--43703398 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43703354 ATTATTAAGA
*
43703364 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
43703381 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
43703399 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:43703653 original size:16 final size:16
Alignment explanation
Indices: 43703632--43703680 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
43703622 TTGATTTGCT
43703632 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
43703648 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
43703664 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
43703680 A
1 A
43703681 ATACAGCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:43705112 original size:13 final size:13
Alignment explanation
Indices: 43705094--43705122 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
43705084 TAAATGTACT
43705094 AGGTGCATTAGTA
1 AGGTGCATTAGTA
43705107 AGGTGCATTAGTA
1 AGGTGCATTAGTA
43705120 AGG
1 AGG
43705123 CCGAAAGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.07, G:0.34, T:0.28
Consensus pattern (13 bp):
AGGTGCATTAGTA
Found at i:43710614 original size:30 final size:28
Alignment explanation
Indices: 43710580--43710635 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
43710570 GTGATTAAAT
43710580 AAAATCGACA-CAAGCAGAATTGAAAAGAAA
1 AAAATCGACAGCAAG-A-AATT-AAAAGAAA
*
43710610 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
43710636 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.25
29 4 0.17
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:43719087 original size:10 final size:10
Alignment explanation
Indices: 43719072--43719109 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
43719062 GCTCGTTTCC
*
43719072 AGCTCACTCG
1 AGCTCAATCG
43719082 AGCTCAAGTC-
1 AGCTCAA-TCG
43719092 AGCTCAATCG
1 AGCTCAATCG
43719102 AGCTCAAT
1 AGCTCAAT
43719110 TTAGCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:43719115 original size:20 final size:20
Alignment explanation
Indices: 43719071--43719108 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
43719061 AGCTCGTTTC
*
43719071 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
43719091 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
43719109 TTTAGCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:43720908 original size:25 final size:25
Alignment explanation
Indices: 43720863--43720939 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 25
43720853 AAAAAAAATC
43720863 AAAAAAAATTCGAAAAAAAAAATTGATTGAA
1 AAAAAAAATTC--AAAAAAAAA--G--TGAA
43720894 AAAAAAAATTCAAAAAAAAAGTGAA
1 AAAAAAAATTCAAAAAAAAAGTGAA
*
43720919 AAAAAAAATTGAATAAAAAAA
1 AAAAAAAATTCAA-AAAAAAA
43720940 AAGGTGAGCA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
25 16 0.36
26 7 0.16
27 1 0.02
29 9 0.20
31 11 0.25
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.16
Consensus pattern (25 bp):
AAAAAAAATTCAAAAAAAAAGTGAA
Found at i:43720909 original size:42 final size:40
Alignment explanation
Indices: 43720852--43720941 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 40
43720842 TTGGAGTAAC
* *
43720852 AAAAAAAAATC-AAAAAAAATTCGAAAAAAAAAATTGATTGA
1 AAAAAAAAATCAAAAAAAAAGT-GAAAAAAAAAATTGAAT-A
43720893 AAAAAAAAATTCAAAAAAAAAGTGAAAAAAAAAATTGAATA
1 AAAAAAAAA-TCAAAAAAAAAGTGAAAAAAAAAATTGAATA
43720934 AAAAAAAA
1 AAAAAAAA
43720942 GGTGAGCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 18 0.40
42 18 0.40
43 9 0.20
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (40 bp):
AAAAAAAAATCAAAAAAAAAGTGAAAAAAAAAATTGAATA
Found at i:43720936 original size:12 final size:12
Alignment explanation
Indices: 43720888--43720939 Score: 59
Period size: 13 Copynumber: 4.1 Consensus size: 12
43720878 AAAAAAATTG
43720888 ATTGAAAAAAAAA
1 ATTG-AAAAAAAA
*
43720901 ATTCAAAAAAAA
1 ATTGAAAAAAAA
*
43720913 AGTGAAAAAAAAA
1 ATTG-AAAAAAAA
43720926 ATTGAATAAAAAA
1 ATTGAA-AAAAAA
43720939 A
1 A
43720940 AAGGTGAGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 12 0.36
13 21 0.64
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (12 bp):
ATTGAAAAAAAA
Found at i:43720952 original size:16 final size:14
Alignment explanation
Indices: 43720904--43720957 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 14
43720894 AAAAAAAATT
43720904 CAAAAAAAAAGTGA
1 CAAAAAAAAAGTGA
*
43720918 -AAAAAAAAATTGAA
1 CAAAAAAAAAGTG-A
*
43720932 TAAAAAAAAAGGTGA
1 CAAAAAAAAA-GTGA
43720947 GCAAAAAAAAA
1 -CAAAAAAAAA
43720958 TCAAGTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 11 0.33
14 1 0.03
15 10 0.30
16 11 0.33
ACGTcount: A:0.74, C:0.04, G:0.13, T:0.09
Consensus pattern (14 bp):
CAAAAAAAAAGTGA
Found at i:43721923 original size:18 final size:18
Alignment explanation
Indices: 43721885--43721926 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
43721875 AAATCGAAAG
* **
43721885 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
43721903 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
43721921 AAAAGA
1 AAAAGA
43721927 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:43723636 original size:10 final size:10
Alignment explanation
Indices: 43723621--43723658 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
43723611 GCTCGTTTCC
*
43723621 AGCTCACTCG
1 AGCTCAATCG
43723631 AGCTCAAGTC-
1 AGCTCAA-TCG
43723641 AGCTCAATCG
1 AGCTCAATCG
43723651 AGCTCAAT
1 AGCTCAAT
43723659 TTAGCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:43723664 original size:20 final size:20
Alignment explanation
Indices: 43723620--43723657 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
43723610 AGCTCGTTTC
*
43723620 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
43723640 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
43723658 TTTAGCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:43725482 original size:22 final size:21
Alignment explanation
Indices: 43725436--43725483 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
43725426 TTATTAGTTG
*
43725436 GTTT-AATGTGTTTAATGCAT
1 GTTTAAATGTGTTTAATGAAT
*
43725456 G-TTAAATGTGTCTTTATGAAT
1 GTTTAAATGTGT-TTAATGAAT
43725477 GTTTAAA
1 GTTTAAA
43725484 GGCCGATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 8 0.35
21 8 0.35
22 5 0.22
ACGTcount: A:0.29, C:0.04, G:0.19, T:0.48
Consensus pattern (21 bp):
GTTTAAATGTGTTTAATGAAT
Found at i:43731580 original size:12 final size:12
Alignment explanation
Indices: 43731542--43731580 Score: 60
Period size: 13 Copynumber: 3.1 Consensus size: 12
43731532 TAAAAATCAT
43731542 AAAATTTATAAA
1 AAAATTTATAAA
43731554 CAAAATTTATAAA
1 -AAAATTTATAAA
43731567 AAAATGTTATAAA
1 AAAAT-TTATAAA
43731580 A
1 A
43731581 TTTAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 5 0.20
13 20 0.80
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (12 bp):
AAAATTTATAAA
Found at i:43731590 original size:8 final size:8
Alignment explanation
Indices: 43731566--43731599 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
43731556 AAATTTATAA
43731566 AAAAATGTT
1 AAAAAT-TT
43731575 ATAAAATTT
1 A-AAAATTT
43731584 AAAAATTT
1 AAAAATTT
43731592 AAAAATTT
1 AAAAATTT
43731600 TATTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 15 0.62
9 4 0.17
10 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (8 bp):
AAAAATTT
Found at i:43733635 original size:22 final size:23
Alignment explanation
Indices: 43733610--43733653 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
43733600 TTAGCGAATG
43733610 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATAAAATAAAC
* *
43733632 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
43733654 ATATAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAC
Found at i:43734231 original size:2 final size:2
Alignment explanation
Indices: 43734224--43734262 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
43734214 AGTGGGTTCT
43734224 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43734263 CTCACACTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:43740179 original size:2 final size:2
Alignment explanation
Indices: 43740172--43740216 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
43740162 TCAAGCTTAC
43740172 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
43740214 TG T
1 TG T
43740217 TCGTTGTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:43742153 original size:394 final size:394
Alignment explanation
Indices: 43741424--43742608 Score: 2093
Period size: 394 Copynumber: 3.0 Consensus size: 394
43741414 TGATTACGTG
* *
43741424 TATATACATGAGTTAGTTTAGAAGTTGTGTCGGGTCCGGTAATGCCTCGTAACCCCATTTCGGCG
1 TATATACATGCGTTAGTTCAGAAGTTGTGTCGGGTCCGGTAATGCCTCGTAACCCCATTTCGGCG
*
43741489 ACGGATACGGGTTAAGGGTGTTACAGCTCTTTTTTTTTCTTTTGAGCGTACTATACTTAAAATCT
66 ACGGATACGGGTTAAGGGTGTTACAGCTC-ATTTTTTTCTTTTGAGCGTACTATACTTAAAATCT
* * *
43741554 CTTCACTTTCTATATTTCTTCTTAAATCCTATATTTACGTAGTCCTTAACCATTTCATTTACCTT
130 CTTCACTTTCTATATCTCTTCTTAAATCCTATCTTTACATAGTCCTTAACCATTTCATTTACCTT
43741619 ATTAGCAGACTTAAAATCTTATTTCATACTTATTGATTTTACCACTACCTTCGGGCGAGGTAAAC
195 ATTAGCAGACTTAAAATCTTATTTCATACTTATTGATTTTACCACTACCTTCGGGCGAGGTAAAC
*
43741684 TACACCCATTACTTAACGTAGAGTTAACCCAAATCTTCCTTACTTTAGGGTGCTATCTATATATA
260 TACACCCATTACTTAACGTAGAGTTAACCCAGATCTTCCTTACTTTAGGGTGCTATCTATATATA
43741749 AATATAACACATATCCCGGATTCGTCACCTATTTTGGTGCACTCTAGCTTCACTATTATTTTCTT
325 AATATAACACATATCCCGGATTCGTCACCTATTTTGGTGCACTCTAGCTTCACTATTATTTTCTT
43741814 GTTAT
390 GTTAT
* *
43741819 TATATACATGCGTTAGTTCAGAAGTTGTGTCGGGTCCGGTAATACCTCGTAACCCCATTTCAGCG
1 TATATACATGCGTTAGTTCAGAAGTTGTGTCGGGTCCGGTAATGCCTCGTAACCCCATTTCGGCG
43741884 ACGGATACGGGTTAAGGGTGTTACAGCTCATTTTTTTCTTTTGAGCGTACTATACTTAAAATCTC
66 ACGGATACGGGTTAAGGGTGTTACAGCTCATTTTTTTCTTTTGAGCGTACTATACTTAAAATCTC
*
43741949 TTCACTTTCTATATCTCTTCTTAAATCTTATCTTTACATAGTCCTTAACCATTTCATTTACCTTA
131 TTCACTTTCTATATCTCTTCTTAAATCCTATCTTTACATAGTCCTTAACCATTTCATTTACCTTA
*
43742014 TTAGCAGACTTAAAATCTTATTTCATACTTATTGATTTTACCACTACCTTCGGGCGAGGTAAGCT
196 TTAGCAGACTTAAAATCTTATTTCATACTTATTGATTTTACCACTACCTTCGGGCGAGGTAAACT
43742079 ACACCCATTACTTAACGTAGAGTTAACCCAGATCTTCCTTACTTTAGGGTGCTATCTATATATAA
261 ACACCCATTACTTAACGTAGAGTTAACCCAGATCTTCCTTACTTTAGGGTGCTATCTATATATAA
*
43742144 ATATAACACATATCCCAGATTCGTCACCTATTTTGGTGCACTCTAGCTTCACTATTATTTTCTTG
326 ATATAACACATATCCCGGATTCGTCACCTATTTTGGTGCACTCTAGCTTCACTATTATTTTCTTG
43742209 TTAT
391 TTAT
*
43742213 TATATACATGCGTTAGTTCAGAAGTTGTGTCGGGTCCGGTAATGCCTCGTAACCCTATTTCGGCG
1 TATATACATGCGTTAGTTCAGAAGTTGTGTCGGGTCCGGTAATGCCTCGTAACCCCATTTCGGCG
* * * * *
43742278 ACGAATACTGGTTAAGGGTGTTACAGGTCAATTTTTTCCTTTGAGCGTACTATACTTAAAATCTC
66 ACGGATACGGGTTAAGGGTGTTACAGCTCATTTTTTTCTTTTGAGCGTACTATACTTAAAATCTC
43742343 TTCACTTTCTATATCTCTTCTTAAATCCTATCTTTACATAGTCCTTAACCATTTCATTTACCTTA
131 TTCACTTTCTATATCTCTTCTTAAATCCTATCTTTACATAGTCCTTAACCATTTCATTTACCTTA
*
43742408 TTAGCAGACTTAAAATCTTATTTCATAC-TATTGATTTTACCACTACCTTCGGGCGAAGTAAACT
196 TTAGCAGACTTAAAATCTTATTTCATACTTATTGATTTTACCACTACCTTCGGGCGAGGTAAACT
* *
43742472 ACGCCCATTACTTAACGTAGAGTTAACCCAGATCTTCCTTACTTCAGGGTGCTATCTATATATAA
261 ACACCCATTACTTAACGTAGAGTTAACCCAGATCTTCCTTACTTTAGGGTGCTATCTATATATAA
* * * * * * * *
43742537 ATATAACACATATCTCGGATTCGTCACCTATTCTGGCGGACTCTATCTTTACTGTTATTTTCTTA
326 ATATAACACATATCCCGGATTCGTCACCTATTTTGGTGCACTCTAGCTTCACTATTATTTTCTTG
43742602 TTAT
391 TTAT
43742606 TAT
1 TAT
43742609 GCGGGGTTCG
Statistics
Matches: 756, Mismatches: 34, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
393 160 0.21
394 506 0.67
395 90 0.12
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (394 bp):
TATATACATGCGTTAGTTCAGAAGTTGTGTCGGGTCCGGTAATGCCTCGTAACCCCATTTCGGCG
ACGGATACGGGTTAAGGGTGTTACAGCTCATTTTTTTCTTTTGAGCGTACTATACTTAAAATCTC
TTCACTTTCTATATCTCTTCTTAAATCCTATCTTTACATAGTCCTTAACCATTTCATTTACCTTA
TTAGCAGACTTAAAATCTTATTTCATACTTATTGATTTTACCACTACCTTCGGGCGAGGTAAACT
ACACCCATTACTTAACGTAGAGTTAACCCAGATCTTCCTTACTTTAGGGTGCTATCTATATATAA
ATATAACACATATCCCGGATTCGTCACCTATTTTGGTGCACTCTAGCTTCACTATTATTTTCTTG
TTAT
Found at i:43744282 original size:4 final size:4
Alignment explanation
Indices: 43744273--43744307 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
43744263 AAAGACAAAG
*
43744273 AAAT AAAT AAAT AAAT AAAT AAAT ACAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
43744308 ATGGGAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:43745413 original size:15 final size:15
Alignment explanation
Indices: 43745393--43745422 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43745383 GTTTCCTCTA
*
43745393 TTTGTTGTCTTCTTG
1 TTTGTTGGCTTCTTG
43745408 TTTGTTGGCTTCTTG
1 TTTGTTGGCTTCTTG
43745423 CAGGTGACAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.13, G:0.23, T:0.63
Consensus pattern (15 bp):
TTTGTTGGCTTCTTG
Found at i:43746036 original size:89 final size:89
Alignment explanation
Indices: 43745892--43746093 Score: 255
Period size: 89 Copynumber: 2.3 Consensus size: 89
43745882 TGGTTTTAGT
** * * * ** *
43745892 CTGCTCCACTGC-ACAGCAGGAAGATAAGATTTGATATCTTCAGTCTGTTCCACTGCACCTTTAG
1 CTGCTCCACTGCAACTTCAGGGAGACAAGATCTGATATCTTCAGTCTACTCCACTGCACCTTCAG
* *
43745956 GGAGATAAGACTTGTAATTTTAAC
66 GGAGATAAAACTTGTAATTTCAAC
* * *
43745980 C-GACTCCACTGCAACTTCAGGGAGACAAGATCTGCTATCTTCAGTCTACTCTACTGCATCTTCA
1 CTG-CTCCACTGCAACTTCAGGGAGACAAGATCTGATATCTTCAGTCTACTCCACTGCACCTTCA
*
43746044 GGGAGATAAAACTTGTAATTTCAGC
65 GGGAGATAAAACTTGTAATTTCAAC
43746069 CTGCTCCACTGCAACTTCAGGGAGA
1 CTGCTCCACTGCAACTTCAGGGAGA
43746094 TAAGGCTTGT
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
87 1 0.01
88 10 0.10
89 85 0.88
90 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (89 bp):
CTGCTCCACTGCAACTTCAGGGAGACAAGATCTGATATCTTCAGTCTACTCCACTGCACCTTCAG
GGAGATAAAACTTGTAATTTCAAC
Found at i:43746081 original size:133 final size:132
Alignment explanation
Indices: 43745930--43746180 Score: 304
Period size: 133 Copynumber: 1.9 Consensus size: 132
43745920 ATTTGATATC
* * * * * *
43745930 TTCAGTCTGTTCCACTGCACCTTTAGGGAGATAAGACTTGTAATTTTAACCGACTCCACTGCAAC
1 TTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACCGACTACACTGCAAC
* * * * * *
43745995 TTCAGGGAGACAAGATCTGCTATCTTCAGTCTACTCTACTGCATCTTCAGGGAGATAAAACTTGT
66 TTCAAGGAAACAAGATCTG-TAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAAACTTGT
43746060 AAT
130 AAT
* * * * *
43746063 TTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTAGCTTTAATCTATTACACTGCAAC
1 TTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACCGACTACACTGCAAC
* * * *
43746128 TTCAAGGAAATAAGATTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAG
66 TTCAAGGAAACAAGATCTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAG
43746181 TTAAGATTTG
Statistics
Matches: 97, Mismatches: 21, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
132 28 0.29
133 69 0.71
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (132 bp):
TTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACCGACTACACTGCAAC
TTCAAGGAAACAAGATCTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAAACTTGTA
AT
Found at i:43746187 original size:44 final size:44
Alignment explanation
Indices: 43745791--43746190 Score: 255
Period size: 44 Copynumber: 9.1 Consensus size: 44
43745781 CTACTGCGTC
* * * * * * * *
43745791 TTGTTGCTTCAATCCACTCCATTGCAAATTCAGAGAGATATGAC
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * * * *
43745835 TTGTAGCTTCAATCCAATCCACTACAATTTTAAGGAGATGAGAT
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * * ** *
43745879 TTGTGGTTTTAGTCTGCTCCACTGC-ACAGCAGGAAGATAAGAT
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * ** * * *
43745922 TTGATATCTTCAGTCTGTTCCACTGCACCTTTAGGGAGATAAGAC
1 TTG-TAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
** * * *
43745967 TTGTAATTTTAACCGACTCCACTGCAACTTCAGGGAGACAAGAT
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * * * *
43746011 CTGCTATCTTCAGTCTACTCTACTGCATCTTCAGGGAGATAAAAC
1 TTG-TAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* ** * **
43746056 TTGTA-ATTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGGC
1 TTGTAGCTTT-AATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
43746100 TTGTAGCTTTAATCTATTACACTGCAACTTCAAGGAAATAAGAT
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* *
43746144 TTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAGTTAAGAT
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
43746188 TTG
1 TTG
43746191 CCACGATGAC
Statistics
Matches: 267, Mismatches: 84, Indels: 10
0.74 0.23 0.03
Matches are distributed among these distances:
43 16 0.06
44 201 0.75
45 50 0.19
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
TTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
Found at i:43749643 original size:35 final size:35
Alignment explanation
Indices: 43749581--43749660 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
43749571 ATTTTATTTG
*
43749581 TTTA-ATTATATAAGTAATGATATTTAAA-TATAA
1 TTTATATTATATAAGTAATGATAATTAAATTATAA
* *
43749614 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AAGTAATGATAATTAAATTATAA
*
43749650 -TGATATTATAT
1 TTTATATTATAT
43749661 TATTAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 24 0.60
36 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (35 bp):
TTTATATTATATAAGTAATGATAATTAAATTATAA
Found at i:43749652 original size:25 final size:23
Alignment explanation
Indices: 43749608--43749668 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
43749598 TGATATTTAA
*
43749608 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
43749632 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
43749657 ATATTATTAAAT
1 ATATAATTAAAT
43749669 AAATCAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:43750978 original size:3 final size:3
Alignment explanation
Indices: 43750970--43750995 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
43750960 ATGAGGTAAG
43750970 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
43750996 AGATGAGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:43758688 original size:20 final size:20
Alignment explanation
Indices: 43758659--43758705 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
43758649 AATCCTAGAA
*
43758659 ATGACCCAAACCTTTGATCC
1 ATGACCCAAACCTTTGACCC
* *
43758679 ATGACTCAAATCTTTGACCC
1 ATGACCCAAACCTTTGACCC
43758699 ATGACCC
1 ATGACCC
43758706 GATCGCGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.34, G:0.11, T:0.26
Consensus pattern (20 bp):
ATGACCCAAACCTTTGACCC
Found at i:43764538 original size:21 final size:21
Alignment explanation
Indices: 43764508--43764553 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
43764498 TCTATGTAAA
43764508 AGGA-TATGGTTGATCGATAT
1 AGGATTATGGTTGATCGATAT
43764528 AGGATTATGGTTGATCGATAT
1 AGGATTATGGTTGATCGATAT
43764549 AGGAT
1 AGGAT
43764554 AAGACCCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.35
Consensus pattern (21 bp):
AGGATTATGGTTGATCGATAT
Found at i:43764812 original size:88 final size:88
Alignment explanation
Indices: 43764659--43764935 Score: 430
Period size: 88 Copynumber: 3.2 Consensus size: 88
43764649 TACTCTAACA
* * * * *
43764659 CTAGCAACTCTTGAATTTTATGTAATGTATGAACATCGATGAAAGTTAGCAATTTAATCAAACAT
1 CTAGCAACTCTTGAATTTTATGTGATGCATGAACATCAATGAAAGTTAGCAGTTTAATCAGACAT
*
43764724 ATTTTATGATGAGACATAACATG
66 ATTTTATGATGAGGCATAACATG
* * *
43764747 CTAGCAACTCTTGAATTTTATGTGATCCATGAACTTCAATCAAAGTTAGCAGTTTAATCAGACAT
1 CTAGCAACTCTTGAATTTTATGTGATGCATGAACATCAATGAAAGTTAGCAGTTTAATCAGACAT
* *
43764812 A-TTTCTGATGAGGCATAACATA
66 ATTTTATGATGAGGCATAACATG
*
43764834 CTAACAACTCTTGAATTTTATGTGATGCATGAACATCAATGAAAGTTAGCAGTTTAATCAGACAT
1 CTAGCAACTCTTGAATTTTATGTGATGCATGAACATCAATGAAAGTTAGCAGTTTAATCAGACAT
*
43764899 ATTTTATGATGAGGCATAACTTG
66 ATTTTATGATGAGGCATAACATG
43764922 CTAGCAACTCTTGA
1 CTAGCAACTCTTGA
43764936 TTGTCAAGTG
Statistics
Matches: 169, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
87 80 0.47
88 89 0.53
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.34
Consensus pattern (88 bp):
CTAGCAACTCTTGAATTTTATGTGATGCATGAACATCAATGAAAGTTAGCAGTTTAATCAGACAT
ATTTTATGATGAGGCATAACATG
Found at i:43774707 original size:37 final size:37
Alignment explanation
Indices: 43774660--43774735 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
43774650 AACAACAAGT
43774660 AAATAATTTAGGAGAGGTTACAGAATTAGATTTGAAC
1 AAATAATTTAGGAGAGGTTACAGAATTAGATTTGAAC
43774697 AAATAATTTAGGAGAGGTTACAGAATTAGATTTGAAC
1 AAATAATTTAGGAGAGGTTACAGAATTAGATTTGAAC
43774734 AA
1 AA
43774736 CGAATCTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (37 bp):
AAATAATTTAGGAGAGGTTACAGAATTAGATTTGAAC
Found at i:43782706 original size:497 final size:488
Alignment explanation
Indices: 43781775--43782765 Score: 1340
Period size: 497 Copynumber: 2.0 Consensus size: 488
43781765 ATCTGTTATG
* * *
43781775 GTTTGCCAGTTTGCCTTCAAATGCTCACATAACTACTCAGGCCACTACTGATTTCAGAATCACAC
1 GTTTACCAGTTTGCCTTCAAATGCTCACATAACTACCCAGGCCACTACTGATTTCAGAATCACAA
* * * *
43781840 ATATTGACTTCTGCACTATATATGTTCTCAACTTTCAAGCTCAAACTGTGTTTGATATGAGTGGA
66 AAATTGAATTCTGCACCATATACGTTCTCAACTTTCAAGCTCAAACTGTGTTTGATATGAGTGGA
*
43781905 AGAGGAAAAGCAGAAAAGGTGGAAGGAAAATGGTGTTTTCGGTCGTGTCCATCTTTTGCTTCATC
131 AGAGGAAAAACAGAAAAGGTGGAAGGAAAATGGTGTTTTCGGTCG-GTCCATCTTTTGCTTCATC
* * * * * *
43781970 TGTATTGAGGCAATGGAGTGAGAGAACGAAAAAGGGAGAGATTGCATCTGCCGGTTCCTTCAAAA
195 CGTATTGAGGAAATAGAGTGAGAGAACGAAAAAGGGAAAGATTGCATCTGCCGATACCTTCAAAA
*
43782035 TCCAATTCCTCTGAAAGTGGTGGAAACCACTGATTCAACTAAAATCAATTTATTTTATTCACATT
260 TCCAATTCCTCTGAAAGTGGTGGAAACCACTGATTCAACTAAAACCAATTTATTTTATTCACATT
* * * * **
43782100 TATCCTCCGCTCCTTGCTTTCCCTCTTTTTTCCCAATTCTGCACAAAAATCAGGAAGAAAAAAAC
325 TATCCTCAGCACCTAGCTTTCCCCCTAGTTTCCCAATTCTGCACAAAAATCAGGAAGAAAAAAAC
*
43782165 TTCTATCCTTACCTTTCGTTCCTCAGCCCACATTCCTTCCCTCCATTTCTTTCTT-GAAAAGCAG
390 TTCTATCCTTACCTTTCGTTACTCAGCCCACATTCCTTCCCTCCATTTCTTTCTTAGAAAA-CAG
43782229 TGCAATGCACAAG-TTCAAGAAAATCCCTTAAGCAT
454 TGCAATGCAC-AGTTTCAAGAAAATCCCTTAAGCAT
** *
43782264 GTTTACCAGTTTGCCTTCAAATGCTCACATAACTACCCAGGCCGTTATTGATTTCAGAATCACAA
1 GTTTACCAGTTTGCCTTCAAATGCTCACATAACTACCCAGGCCACTACTGATTTCAGAATCACAA
* *
43782329 AAATTGAATTCTGCACCATATACGTTCTTAACTTTCAAGTTTCAACCTTAAACTGTGTTT-AGTA
66 AAATTGAATTCTGCACCATATACGTTCTCAACTTTCAAG-------CTCAAACTGTGTTTGA-TA
* * * *
43782393 TGAGTGGAAGAGGAAAAACAGAAAGTAGGTGGAAGGAAATTGGTTTTTTTTGGTC-GTCCTTCTT
123 TGAGTGGAAGAGGAAAAACAGAAA--AGGTGGAAGGAAAATGG-TGTTTTCGGTCGGTCCATCTT
43782457 TTGCTTCATCCGTATTGAGGAAATAGAGTGAGAGAAC-AAAAACGGGAAAGATTGCATCAGTG-C
185 TTGCTTCATCCGTATTGAGGAAATAGAGTGAGAGAACGAAAAA-GGGAAAGATTGCATC--TGCC
* *
43782520 -ATACCTTCAAAATCCATTTCCTCTGAAAGTGGTGGAAACCACTGATTCAACTAGAACCAATTTA
247 GATACCTTCAAAATCCAATTCCTCTGAAAGTGGTGGAAACCACTGATTCAACTAAAACCAATTTA
43782584 TTTTATTCACATTTATCCTCAGCACCTAGCTTTCCCCCCCTAGTTT-CCAATTCTGCACAAAAAT
312 TTTTATTCACATTTATCCTCAGCACCTAGCTTT--CCCCCTAGTTTCCCAATTCTGCACAAAAAT
**** * **
43782648 CA-G-A-AAATCCTCTTTTCTATCCTTCCCTTTTC-TTACTCAGCCCATGTTCCTTCCCTCCATT
375 CAGGAAGAAAAAAAC--TTCTATCCTTACC-TTTCGTTACTCAGCCCACATTCCTTCCCTCCATT
43782709 TCTTTCTTAGAAAACAGTGCAATGCACAGTTTCAAGAAAATCCCTTAAGCAT
437 TCTTTCTTAGAAAACAGTGCAATGCACAGTTTCAAGAAAATCCCTTAAGCAT
43782761 GTTTA
1 GTTTA
43782766 GGGAAACAGG
Statistics
Matches: 441, Mismatches: 40, Indels: 34
0.86 0.08 0.07
Matches are distributed among these distances:
489 93 0.21
495 5 0.01
496 46 0.10
497 232 0.53
498 46 0.10
499 19 0.04
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (488 bp):
GTTTACCAGTTTGCCTTCAAATGCTCACATAACTACCCAGGCCACTACTGATTTCAGAATCACAA
AAATTGAATTCTGCACCATATACGTTCTCAACTTTCAAGCTCAAACTGTGTTTGATATGAGTGGA
AGAGGAAAAACAGAAAAGGTGGAAGGAAAATGGTGTTTTCGGTCGGTCCATCTTTTGCTTCATCC
GTATTGAGGAAATAGAGTGAGAGAACGAAAAAGGGAAAGATTGCATCTGCCGATACCTTCAAAAT
CCAATTCCTCTGAAAGTGGTGGAAACCACTGATTCAACTAAAACCAATTTATTTTATTCACATTT
ATCCTCAGCACCTAGCTTTCCCCCTAGTTTCCCAATTCTGCACAAAAATCAGGAAGAAAAAAACT
TCTATCCTTACCTTTCGTTACTCAGCCCACATTCCTTCCCTCCATTTCTTTCTTAGAAAACAGTG
CAATGCACAGTTTCAAGAAAATCCCTTAAGCAT
Found at i:43784133 original size:16 final size:17
Alignment explanation
Indices: 43784112--43784146 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
43784102 CACCATTAAA
43784112 TATTCTGTTAT-TTTAT
1 TATTCTGTTATGTTTAT
*
43784128 TATTCTGTTCTGTTTAT
1 TATTCTGTTATGTTTAT
43784145 TA
1 TA
43784147 ATTATTGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.17, C:0.09, G:0.09, T:0.66
Consensus pattern (17 bp):
TATTCTGTTATGTTTAT
Found at i:43796451 original size:15 final size:16
Alignment explanation
Indices: 43796425--43796457 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
43796415 TTATTAAATT
*
43796425 ATATATTTTAATGATA
1 ATATATTTTAATAATA
43796441 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
43796456 AT
1 AT
43796458 TATGTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:43796476 original size:107 final size:108
Alignment explanation
Indices: 43796365--43796575 Score: 388
Period size: 107 Copynumber: 2.0 Consensus size: 108
43796355 TATAGTATTA
* *
43796365 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
43796430 TTTTAATGATAATATATTTAATAATAATTATG-TTAAATTATC
66 TTTTAATGATAATATATTTAATAATAATTATGTTTAAATTATC
43796472 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
*
43796537 TTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 TTTTAATGATAATATATTTAATAATAATTATGTTTAAAT
43796576 ATGATTAAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 94 0.94
108 6 0.06
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (108 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
TTTTAATGATAATATATTTAATAATAATTATGTTTAAATTATC
Found at i:43796553 original size:16 final size:16
Alignment explanation
Indices: 43796532--43796573 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
43796522 TTATTAAATT
*
43796532 ATATATTTTAATTATA
1 ATATATTTTAATAATA
43796548 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
43796563 AT-TATGTTTAA
1 ATATAT-TTTAA
43796574 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:43796558 original size:15 final size:15
Alignment explanation
Indices: 43796523--43796564 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
43796513 TTAAGAATTT
*
43796523 TATTAAATTAT-ATA
1 TATTTAATTATAATA
43796537 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
43796551 TATTTAATAATAAT
1 TATTTAATTATAAT
43796565 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:43796799 original size:45 final size:44
Alignment explanation
Indices: 43796699--43796808 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
43796689 TTTTTCATTA
43796699 TGCTATTACACCTCTA-T---TT-CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
43796738 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
43796783 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
43796809 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 14 0.24
40 1 0.02
43 2 0.03
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:43796838 original size:16 final size:16
Alignment explanation
Indices: 43796789--43796840 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
43796779 GATTTGCTAT
* *
43796789 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
43796805 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
43796821 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
43796837 TACA
1 TACA
43796841 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:43797274 original size:42 final size:42
Alignment explanation
Indices: 43797215--43797299 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
43797205 AAACATCCAC
43797215 CACCCAAGTATATGATCTTGGTTGCAAGCATCATGACAAAGT
1 CACCCAAGTATATGATCTTGGTTGCAAGCATCATGACAAAGT
43797257 CACCCAAGTATATGATCTTGGTTGCAAGCATCATGACAAAGT
1 CACCCAAGTATATGATCTTGGTTGCAAGCATCATGACAAAGT
43797299 C
1 C
43797300 TTCCTTCCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (42 bp):
CACCCAAGTATATGATCTTGGTTGCAAGCATCATGACAAAGT
Found at i:43798912 original size:21 final size:19
Alignment explanation
Indices: 43798872--43798915 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
43798862 ATATTAATTT
* *
43798872 TTTTTAAAATAATTTTTAA
1 TTTTAAAAATAATTTATAA
43798891 TTTTAAAAATAAATGTTATAA
1 TTTTAAAAAT-AAT-TTATAA
43798912 TTTT
1 TTTT
43798916 TTGAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 3 0.14
21 9 0.43
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTAAAAATAATTTATAA
Found at i:43799311 original size:25 final size:25
Alignment explanation
Indices: 43799277--43799328 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
43799267 CTGGTTTTTA
*
43799277 TTTTCATAACTTATTTTAATGAGAG
1 TTTTCATAACTGATTTTAATGAGAG
* *
43799302 TTTTCATAACTGGTTTTGATGAGAG
1 TTTTCATAACTGATTTTAATGAGAG
43799327 TT
1 TT
43799329 AAAGAAAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (25 bp):
TTTTCATAACTGATTTTAATGAGAG
Found at i:43800128 original size:13 final size:13
Alignment explanation
Indices: 43800088--43800149 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 13
43800078 TTCTTCATTA
*
43800088 CTTTTGAAAAGTG
1 CTTTTGAGAAGTG
* * * *
43800101 CTATGGAAAAATG
1 CTTTTGAGAAGTG
*
43800114 CTTTTTAGAAGTG
1 CTTTTGAGAAGTG
*
43800127 CTTTTGAGAGGTG
1 CTTTTGAGAAGTG
43800140 CTTTTGAGAA
1 CTTTTGAGAA
43800150 ATTTGAGTGT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (13 bp):
CTTTTGAGAAGTG
Found at i:43802292 original size:72 final size:73
Alignment explanation
Indices: 43802202--43802376 Score: 230
Period size: 72 Copynumber: 2.4 Consensus size: 73
43802192 AAAATCACAT
* * *
43802202 ATAAACAACTATTGATAAAACTAATTTAGTAAA-AAATAAGTAGAATATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAATTTAGCAAATAAATAAGTAGAACATAAATTCAATATCCAAA
*
43802266 GACCAAAC
66 AACCAAAC
* *
43802274 ATAAACAACTTTTAATAAAACTAGA-TTA-CAAATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCAAATAAATAAGTAGAACATAAATTCAATATCCAA
*
43802337 AAACCAAGC
65 AAACCAAAC
* * *
43802346 ATAAATAACTGTTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
43802377 TTGTTGTTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
71 3 0.03
72 82 0.93
73 3 0.03
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCAAATAAATAAGTAGAACATAAATTCAATATCCAAA
AACCAAAC
Found at i:43802819 original size:18 final size:18
Alignment explanation
Indices: 43802798--43802845 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
43802788 TCCATCAATT
*
43802798 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
*
43802816 TGAACATTATTTAAAATG
1 TGAACATCATTTAAAATG
43802834 TGAACATCATTT
1 TGAACATCATTT
43802846 CTCATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:43804523 original size:24 final size:24
Alignment explanation
Indices: 43804454--43804514 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
43804444 TTTGTAACCT
*
43804454 AAGGGGAGGGAAACTGAGGAATGA
1 AAGGGGAAGGAAACTGAGGAATGA
43804478 AAGGGGAAGGAAACTGAGGAATGA
1 AAGGGGAAGGAAACTGAGGAATGA
43804502 AAGGGGAAGGAAA
1 AAGGGGAAGGAAA
43804515 TCGCAGAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.03, G:0.44, T:0.07
Consensus pattern (24 bp):
AAGGGGAAGGAAACTGAGGAATGA
Found at i:43806958 original size:19 final size:19
Alignment explanation
Indices: 43806934--43807016 Score: 76
Period size: 19 Copynumber: 4.1 Consensus size: 19
43806924 GTGGTGGAGA
*
43806934 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
43806953 AGAGGAACAAAGAACCAGCACCAGC
1 AGAGGAACAAAG----A--ACCAGC
*
43806978 AGAGGAACAAATAACCAGC
1 AGAGGAACAAAGAACCAGC
* *
43806997 AAAGGAAAAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
43807016 A
1 A
43807017 CCAGCAGAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
19 35 0.66
21 1 0.02
25 17 0.32
ACGTcount: A:0.53, C:0.23, G:0.23, T:0.01
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:43806972 original size:25 final size:25
Alignment explanation
Indices: 43806944--43807060 Score: 147
Period size: 25 Copynumber: 4.9 Consensus size: 25
43806934 AGAGGAACAA
43806944 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
*
43806969 AGCACCAGCAGAGGAACAAATAACC
1 AGCACCAGCAGAGGAACAAAGAACC
*
43806994 AG---CA--A-AGGAAAAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
*
43807013 AGCACCAGCAGAAGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* *
43807038 AGCACCAGTAGAGGATCAAAGAA
1 AGCACCAGCAGAGGAACAAAGAA
43807061 GCAACAGATG
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
19 14 0.18
20 1 0.01
22 4 0.05
24 1 0.01
25 58 0.74
ACGTcount: A:0.51, C:0.24, G:0.22, T:0.03
Consensus pattern (25 bp):
AGCACCAGCAGAGGAACAAAGAACC
Found at i:43806997 original size:44 final size:44
Alignment explanation
Indices: 43806934--43807041 Score: 171
Period size: 44 Copynumber: 2.5 Consensus size: 44
43806924 GTGGTGGAGA
* * *
43806934 AGAGGAACAAAGCACCAGCAGAGGAACAAAGAACCAGCACCAGC
1 AGAGGAACAAAGAACCAGCAAAGGAAAAAAGAACCAGCACCAGC
*
43806978 AGAGGAACAAATAACCAGCAAAGGAAAAAAGAACCAGCACCAGC
1 AGAGGAACAAAGAACCAGCAAAGGAAAAAAGAACCAGCACCAGC
*
43807022 AGAAGAACAAAGAACCAGCA
1 AGAGGAACAAAGAACCAGCA
43807042 CCAGTAGAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.53, C:0.24, G:0.22, T:0.01
Consensus pattern (44 bp):
AGAGGAACAAAGAACCAGCAAAGGAAAAAAGAACCAGCACCAGC
Found at i:43807096 original size:69 final size:69
Alignment explanation
Indices: 43806944--43807083 Score: 199
Period size: 69 Copynumber: 2.0 Consensus size: 69
43806934 AGAGGAACAA
* * *
43806944 AGCACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAACAAATAACCAGCAAAGGAAAAAAG
1 AGCACCAGCAGAAGAACAAAGAACCAGCACCAGCAGAGGAACAAAGAACCAACAAAGGAAAAAAG
43807009 AACC
66 AACC
* * * * * *
43807013 AGCACCAGCAGAAGAACAAAGAACCAGCACCAGTAGAGGATCAAAGAAGCAACAGATGAACAAAG
1 AGCACCAGCAGAAGAACAAAGAACCAGCACCAGCAGAGGAACAAAGAACCAACAAAGGAAAAAAG
43807078 AACC
66 AACC
43807082 AG
1 AG
43807084 AGATGAGAGA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.51, C:0.24, G:0.22, T:0.03
Consensus pattern (69 bp):
AGCACCAGCAGAAGAACAAAGAACCAGCACCAGCAGAGGAACAAAGAACCAACAAAGGAAAAAAG
AACC
Found at i:43821378 original size:24 final size:23
Alignment explanation
Indices: 43821345--43821402 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
43821335 AGTTGAAAAG
43821345 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
43821369 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
43821391 TATATATAATAA
1 TATA-ATAATAA
43821403 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:43821755 original size:49 final size:48
Alignment explanation
Indices: 43821673--43821830 Score: 264
Period size: 49 Copynumber: 3.2 Consensus size: 48
43821663 CTTACTTTGA
*
43821673 GAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
43821720 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
*
43821769 GAATGTGAAAGTGTGTATATATGTGATAGGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
43821818 GAATGTGATAAGT
1 GAATGTGA-AAGT
43821831 CCCGAAGGGC
Statistics
Matches: 105, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
47 13 0.12
49 88 0.84
50 4 0.04
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (48 bp):
GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
Found at i:43822004 original size:37 final size:37
Alignment explanation
Indices: 43821948--43822026 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
43821938 CCGAGCTCTA
* * * *
43821948 AAGACCCGATGACTACGTGTGGGGATTTTGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43821985 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43822022 AAGAC
1 AAGAC
43822027 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43823938 original size:43 final size:43
Alignment explanation
Indices: 43823890--43824035 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
43823880 TTGGTTTTCA
*
43823890 GCACTAAGTGTGCGGGCAACAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
43823933 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
43823976 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
43824019 GCACTAAGTGTGTGGGC
1 GCACTAAGTGTGCGGGC
43824036 TTGAAATGCA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:43824052 original size:29 final size:29
Alignment explanation
Indices: 43824017--43824090 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
43824007 GTTGTGAGAT
* * *
43824017 TGGCACTAAGTGTGTGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
43824046 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
43824075 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43824091 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:43824755 original size:40 final size:40
Alignment explanation
Indices: 43824401--43824741 Score: 366
Period size: 40 Copynumber: 8.5 Consensus size: 40
43824391 TCGAACGATG
* **
43824401 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TGTA
* * * * **
43824441 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TGTA
* * *
43824481 TCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
43824521 TCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
43824561 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
43824601 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGTTGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
** *
43824641 TCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* ** * * * *
43824681 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
43824721 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
43824742 TAATCATGCT
Statistics
Matches: 261, Mismatches: 36, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
39 1 0.00
40 242 0.93
41 18 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:43827931 original size:24 final size:23
Alignment explanation
Indices: 43827898--43827955 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
43827888 AGTTGAAAAG
43827898 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
43827922 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
43827944 TATATATAATAA
1 TATA-ATAATAA
43827956 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:43828310 original size:49 final size:48
Alignment explanation
Indices: 43828226--43828383 Score: 255
Period size: 49 Copynumber: 3.2 Consensus size: 48
43828216 CTTACTTTGA
*
43828226 GAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
*
43828273 GAATGTGAAAGTGTATATATATGTGACAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
*
43828322 GAATGTGAAAGTGTGTATATATGTGATAGGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
43828371 GAATGTGATAAGT
1 GAATGTGA-AAGT
43828384 CCCGAAGGGC
Statistics
Matches: 103, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
47 13 0.13
49 86 0.83
50 4 0.04
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (48 bp):
GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
Found at i:43828557 original size:37 final size:37
Alignment explanation
Indices: 43828501--43828579 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43828491 CCGAGCTCTA
* * *
43828501 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43828538 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43828575 AAGAC
1 AAGAC
43828580 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43833048 original size:43 final size:42
Alignment explanation
Indices: 43832947--43833110 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 42
43832937 AGTACCGTAA
* * * * *
43832947 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTAT
1 CAATGCCATATCCCAGACATGGTCTTACACGAAATCACATAT
* * * *
43832989 CGATGCTAATAGCCCAGCCATGGTCTTACACGAAATCACATAT
1 CAATGC-CATATCCCAGACATGGTCTTACACGAAATCACATAT
* *
43833032 CAATGCCGATGTCCCAGACATGGTCTTACAC-AAAGTCTCATAT
1 CAATGCC-ATATCCCAGACATGGTCTTACACGAAA-TCACATAT
** * *
43833075 TGATGCCATATCCCAGATATGGTCTTACACGTAATC
1 CAATGCCATATCCCAGACATGGTCTTACACGAAATC
43833111 TTGGTAACCC
Statistics
Matches: 98, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 31 0.32
43 67 0.68
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
CAATGCCATATCCCAGACATGGTCTTACACGAAATCACATAT
Found at i:43833098 original size:85 final size:85
Alignment explanation
Indices: 43832947--43833110 Score: 197
Period size: 85 Copynumber: 1.9 Consensus size: 85
43832937 AGTACCGTAA
* ** * *
43832947 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCTAATAGCCCAGCCATGG
1 CAATGCCATATCCCAGACATGGTCTTACATCAAATCTCATATCGATGCTAATAGCCCAGACATGG
43833012 TCTTACACGAAATCACATAT
66 TCTTACACGAAATCACATAT
* * * * *
43833032 CAATGCCGATGTCCCAGACATGGTCTTACA-CAAAGTCTCATATTGATGC-CATATCCCAGATAT
1 CAATGCC-ATATCCCAGACATGGTCTTACATCAAA-TCTCATATCGATGCTAATAGCCCAGACAT
*
43833095 GGTCTTACACGTAATC
64 GGTCTTACACGAAATC
43833111 TTGGTAACCC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 34 0.52
86 32 0.48
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (85 bp):
CAATGCCATATCCCAGACATGGTCTTACATCAAATCTCATATCGATGCTAATAGCCCAGACATGG
TCTTACACGAAATCACATAT
Found at i:43839551 original size:58 final size:58
Alignment explanation
Indices: 43839445--43839563 Score: 159
Period size: 58 Copynumber: 2.1 Consensus size: 58
43839435 AAAAACATCT
* * * **
43839445 TTATAACAGAGATCTCCACAAAGGATTTCTTATAATAAGGATTGCCACAAAGGCTTTC
1 TTATAACAGAGATCGCCAAAAAGGATTTCTTATAACAAGGATCACCACAAAGGCTTTC
* *
43839503 TTATAACAGAGATCGCCAAAAATGCTTTCTTATAACCAA-GATCACCACAAAGGCTTTC
1 TTATAACAGAGATCGCCAAAAAGGATTTCTTATAA-CAAGGATCACCACAAAGGCTTTC
43839561 TTA
1 TTA
43839564 CAGAAACTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
58 51 0.96
59 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (58 bp):
TTATAACAGAGATCGCCAAAAAGGATTTCTTATAACAAGGATCACCACAAAGGCTTTC
Found at i:43839608 original size:29 final size:28
Alignment explanation
Indices: 43839356--43839663 Score: 143
Period size: 29 Copynumber: 10.9 Consensus size: 28
43839346 CACCAAACAT
*
43839356 TTCTTTAACAGAGATAGCCACAAATGCC
1 TTCTTTAACAGAGATAGCCACAAAGGCC
* * * * *
43839384 TCCTTTTGATAGAGATAGCCACAAAGACG
1 TTC-TTTAACAGAGATAGCCACAAAGGCC
* * **
43839413 TTCTTTTGACAGAGATAGCTACAAAAACATC
1 TTC-TTTAACAGAGATAGCCACAAAGGC--C
* ** **
43839444 TT-TATAACAGAGATCTCCACAAAGGAT
1 TTCTTTAACAGAGATAGCCACAAAGGCC
* * *
43839471 TTCTTATAATA-AGGATTGCCACAAAGGCT
1 TTCTT-TAACAGA-GATAGCCACAAAGGCC
* * * *
43839500 TTCTTATAACAGAGATCGCCAAAAATGCT
1 TTCTT-TAACAGAGATAGCCACAAAGGCC
*
43839529 TTCTTATAACCA-AGATCA-CCACAAAGGCT
1 TTCTT-TAA-CAGAGAT-AGCCACAAAGGCC
*
43839558 TTC-TT-ACAGAAACTA-CCACAAAGGCAC
1 TTCTTTAACAGAGA-TAGCCACAAAGGC-C
*
43839585 TTCTTTAATAGAGATAGCCACAAAGGCTC
1 TTCTTTAACAGAGATAGCCACAAAGGC-C
* * *
43839614 AAT-TTTAACTA-AGATAGCCAAAAAGGCG
1 -TTCTTTAAC-AGAGATAGCCACAAAGGCC
*
43839642 TCCTTT--CAGAGATAGCCACAAA
1 TTCTTTAACAGAGATAGCCACAAA
43839664 TACTCACTTA
Statistics
Matches: 217, Mismatches: 44, Indels: 40
0.72 0.15 0.13
Matches are distributed among these distances:
25 3 0.01
26 27 0.12
27 7 0.03
28 12 0.06
29 161 0.74
30 5 0.02
31 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (28 bp):
TTCTTTAACAGAGATAGCCACAAAGGCC
Found at i:43851047 original size:79 final size:82
Alignment explanation
Indices: 43850936--43851120 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
43850926 GCTACTCGTT
* * *
43850936 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
43850999 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
43851016 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
43851079 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
43851096 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43851121 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:43851120 original size:40 final size:40
Alignment explanation
Indices: 43850917--43851120 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
43850907 CGGAATTTAA
** *
43850917 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
43850957 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43850997 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43851036 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
43851076 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43851116 CCGGA
1 CCGGA
43851121 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43858877 original size:40 final size:39
Alignment explanation
Indices: 43858833--43858936 Score: 145
Period size: 39 Copynumber: 2.6 Consensus size: 39
43858823 AGCTCGGTTA
* *
43858833 TAGTAACTCGCACAATTGCCTTCGGGACTTAACCCAGATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCAGAAT
** *
43858873 TAGTAACTCGCACAAATGCCTTCGGGCTTAGTCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCAGAAT
*
43858912 TAGTATCTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
43858937 ATCTTAGTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 33 0.57
40 25 0.43
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCAGAAT
Found at i:43858926 original size:39 final size:39
Alignment explanation
Indices: 43858833--43858989 Score: 156
Period size: 40 Copynumber: 3.9 Consensus size: 39
43858823 AGCTCGGTTA
* ** * *
43858833 TAGTAACTCGCACAATTGCCTTCGGGACTTAACCCAGATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGTCCGGAAT
43858873 TAGTAACTCGCACAAATGCCTTCGGGCTTAGTCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGTCCGGAAT
* *
43858912 TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG-AT
1 TAGTAACTCGCACAAATGCCTTCGG-GCTTAGTCCGGAAT
* * * *
43858951 ATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGTCCGGA
43858990 CATCATTCAA
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
39 35 0.35
40 56 0.57
41 8 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAGTCCGGAAT
Found at i:43865243 original size:27 final size:27
Alignment explanation
Indices: 43865182--43865247 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
43865172 TAGTCTACTA
*
43865182 GGATAGTAAACACAGGATTGTCCGCTG
1 GGATAGTAAACACAGGATAGTCCGCTG
* * * *
43865209 AGACAGTAAATACGGGATAGTCCG-TCG
1 GGATAGTAAACACAGGATAGTCCGCT-G
43865236 GGATAGTAAACA
1 GGATAGTAAACA
43865248 TAGGGTAATC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.20
Consensus pattern (27 bp):
GGATAGTAAACACAGGATAGTCCGCTG
Found at i:43867255 original size:16 final size:16
Alignment explanation
Indices: 43867207--43867256 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
43867197 ATATTGAATA
*
43867207 TATTTTT-T-ATTTTT
1 TATTTTTATAATTATT
43867221 TATTTTTTATATCATTATT
1 TA-TTTTTATA--ATTATT
43867240 TATTTTTATAATTATT
1 TATTTTTATAATTATT
43867256 T
1 T
43867257 TTAATTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 2 0.07
15 5 0.17
16 8 0.27
18 8 0.27
19 7 0.23
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTTATAATTATT
Found at i:43867259 original size:18 final size:18
Alignment explanation
Indices: 43867217--43867259 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
43867207 TATTTTTTAT
43867217 TTTTTATTTTTTATATCA
1 TTTTTATTTTTTATATCA
*
43867235 TTATTTA-TTTTTATAATTA
1 TT-TTTATTTTTTAT-ATCA
43867254 TTTTTA
1 TTTTTA
43867260 ATTTGTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTATTTTTTATATCA
Found at i:43876707 original size:12 final size:12
Alignment explanation
Indices: 43876690--43876714 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43876680 GAAAAAGGAC
43876690 TAAATTGTAAAA
1 TAAATTGTAAAA
43876702 TAAATTGTAAAA
1 TAAATTGTAAAA
43876714 T
1 T
43876715 TTGAATAATA
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
TAAATTGTAAAA
Found at i:43877409 original size:37 final size:40
Alignment explanation
Indices: 43877350--43877455 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 40
43877340 AACTTCGAGT
* * *
43877350 CGATGAGGCACTAGGTGCCAATTTACT-T-TGG-TTTAAC
1 CGATGAGACACTGGGTGCCAATTTACTATCCGGATTTAAC
* **
43877387 CGATGAGACACTGGGTGTCAATTTACTACTCCGGATTTATT
1 CGATGAGACACTGGGTGCCAATTTACTA-TCCGGATTTAAC
*
43877428 CGAGGAGACACTGGGTGCCAATTTACTA
1 CGATGAGACACTGGGTGCCAATTTACTA
43877456 CTTCGAATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
37 24 0.42
39 1 0.02
40 2 0.04
41 30 0.53
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGCCAATTTACTATCCGGATTTAAC
Found at i:43877488 original size:40 final size:40
Alignment explanation
Indices: 43877351--43877488 Score: 115
Period size: 41 Copynumber: 3.5 Consensus size: 40
43877341 ACTTCGAGTC
* * * *
43877351 GATGAGGCACT-AGGTGCCAATTTACT--TT-GGTTTAACC
1 GATGAGACACTGA-GTGCCAATTTACTACTTCGATTTATCT
* * *
43877388 GATGAGACACTGGGTGTCAATTTACTACTCCGGATTTAT-T
1 GATGAGACACTGAGTGCCAATTTACTACTTC-GATTTATCT
* * *
43877428 CGAGGAGACACTGGGTGCCAATTTACTACTTCGAATTATCT
1 -GATGAGACACTGAGTGCCAATTTACTACTTCGATTTATCT
*
43877469 GATGAGGCACTGAGTGCCAA
1 GATGAGACACTGAGTGCCAA
43877489 ATTGGTTTGT
Statistics
Matches: 80, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
37 22 0.28
39 1 0.01
40 23 0.29
41 34 0.43
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (40 bp):
GATGAGACACTGAGTGCCAATTTACTACTTCGATTTATCT
Found at i:43880797 original size:15 final size:15
Alignment explanation
Indices: 43880759--43880798 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
43880749 AAAAGCAACG
*
43880759 AAAAAGAAAATTTGA
1 AAAAATAAAATTTGA
*
43880774 AATAAATAAAATTTTA
1 AA-AAATAAAATTTGA
43880790 AAAAATAAA
1 AAAAATAAA
43880799 GTCTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
AAAAATAAAATTTGA
Found at i:43887692 original size:17 final size:17
Alignment explanation
Indices: 43887642--43887695 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
43887632 CTTGTTTGGT
* * *
43887642 TTTATTGATTTTAGTCA
1 TTTATTTATTTTTGTTA
* *
43887659 TTTGTTTA-TTTTCTTA
1 TTTATTTATTTTTGTTA
43887675 TTTATTTATTTTTGTTA
1 TTTATTTATTTTTGTTA
43887692 TTTA
1 TTTA
43887696 ATTTCTCTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (17 bp):
TTTATTTATTTTTGTTA
Found at i:43889211 original size:51 final size:50
Alignment explanation
Indices: 43889156--43889291 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 50
43889146 TGATAGATAA
* * ** * **
43889156 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTTTACCGGATGGCCT
1 TGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGAACCAGAAAG-CT
* *
43889207 TGGTCACGTTTGTAGTACTATGTGTAGGCTACTACGTGAACCAGAAAGCT
1 TGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGAACCAGAAAGCT
* *
43889257 TGATCACATGTGTAGTACTATGTATAGGCTACTAC
1 TGGTCACATGTGTAGTACTATGTGTAGGCTACTAC
43889292 ATGTATCGGA
Statistics
Matches: 72, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 33 0.46
51 39 0.54
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGAACCAGAAAGCT
Found at i:43893391 original size:17 final size:17
Alignment explanation
Indices: 43893369--43893405 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
43893359 TTCGATGATT
43893369 GCTTCTCCTATGACTAA
1 GCTTCTCCTATGACTAA
43893386 GCTTCTCCTATGACTAA
1 GCTTCTCCTATGACTAA
43893403 GCT
1 GCT
43893406 ACTGCAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.35
Consensus pattern (17 bp):
GCTTCTCCTATGACTAA
Found at i:43896831 original size:12 final size:14
Alignment explanation
Indices: 43896814--43896846 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
43896804 TAATGGTCAC
43896814 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
43896826 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
43896840 ATGTGTA
1 ATGTGTA
43896847 TCGGATGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 1 0.05
14 11 0.58
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.39
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:43896840 original size:51 final size:50
Alignment explanation
Indices: 43896764--43896984 Score: 219
Period size: 51 Copynumber: 4.4 Consensus size: 50
43896754 TATGAACAGG
* *
43896764 TGTGTAGTACTAAGTGCAGGCTACTACGTCTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGAT--TGGTCACA
* * * *
43896815 TGTGTAGTACTATGTGTAGGCTACTATGTGTATCGGATGGCATTGGTCACT
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-ATTGGTCACA
* * * * * * * *
43896866 TGTGTAGTACTATATGCAAGCTACTACGTGAACCGGAAAGCTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATTGGTCACA
* * * *
43896916 TGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGACAATGTTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-AGATTGGTCACA
* *
43896967 TGGGTGGTACTATGTGCA
1 TGTGTAGTACTATGTGCA
43896985 AACCACCGAA
Statistics
Matches: 136, Mismatches: 31, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
50 39 0.29
51 91 0.67
52 4 0.03
53 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATTGGTCACA
Found at i:43900335 original size:23 final size:23
Alignment explanation
Indices: 43900309--43900353 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
43900299 TTTCTTACTG
*
43900309 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCGGGATATTACAA
43900332 TAGTAATTTTCGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
43900354 TGGCATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAA
Found at i:43902301 original size:3 final size:3
Alignment explanation
Indices: 43902293--43902345 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
43902283 ATATGGTACC
* * * * *
43902293 ATT ATT ATT ACT ATT ACT ATT ACT ATT ATT ATC GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
43902341 ATT AT
1 ATT AT
43902346 ATTCCTATTT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:43902342 original size:12 final size:12
Alignment explanation
Indices: 43902293--43902354 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
43902283 ATATGGTACC
43902293 ATTATTATTACT
1 ATTATTATTACT
*
43902305 ATTACTATTACT
1 ATTATTATTACT
***
43902317 ATTATTATCGTT
1 ATTATTATTACT
*
43902329 ATTATTATTATT
1 ATTATTATTACT
*
43902341 ATTA-TATTCCT
1 ATTATTATTACT
43902352 ATT
1 ATT
43902355 TATATGTACT
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
11 8 0.20
12 33 0.80
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.58
Consensus pattern (12 bp):
ATTATTATTACT
Found at i:43907351 original size:6 final size:6
Alignment explanation
Indices: 43907279--43907351 Score: 69
Period size: 6 Copynumber: 11.8 Consensus size: 6
43907269 AAGAATGCTC
* * *
43907279 AAAACA AAAA-A AAAAGA AGAAAG- AAAAGAA AAAAGA AAAGAAA AGAAAGG
1 AAAAGA AAAAGA AAAAGA A-AAAGA AAAAG-A AAAAGA AAA-AGA A-AAAGA
43907329 AAAAGA AAAAGA AAAAGA AAAAG
1 AAAAGA AAAAGA AAAAGA AAAAG
43907352 GAGAGGCCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
5 9 0.16
6 32 0.56
7 14 0.25
8 2 0.04
ACGTcount: A:0.81, C:0.01, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:43907848 original size:97 final size:97
Alignment explanation
Indices: 43907634--43908017 Score: 626
Period size: 97 Copynumber: 4.0 Consensus size: 97
43907624 ATTCATTTCG
* * * * *
43907634 TATCTCAGCAAAATTTGCTATCTTGATTAGTTTATTTATTTCGAGCTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
43907699 CAT-TTATCCATTGTGATAATCTTTTTCATCT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
* *
43907730 TATCTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGATGTGCTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
*
43907795 CATCTTATTCATTGTGATAATCTTTTTCATCT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
*
43907827 TATCTTATCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
*
43907892 CATCTTATCCATTATGATAATCTTTTTCATCT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
* * * *
43907924 TATCTTAGAAAAATTTGCTATCTTGCTTAATTTATTCATGTCGAGCTTTGCTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
*
43907989 CATCTTGTCCATTGTGATAATCTTTTTCA
66 CATCTTATCCATTGTGATAATCTTTTTCA
43908018 AGCATTTTTC
Statistics
Matches: 267, Mismatches: 20, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
96 61 0.23
97 206 0.77
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.47
Consensus pattern (97 bp):
TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
CATCTTATCCATTGTGATAATCTTTTTCATCT
Found at i:43909184 original size:41 final size:41
Alignment explanation
Indices: 43909104--43909184 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
43909094 GGGTCAAAAT
* * * *
43909104 GATGGATCTTATCTCTCTGAAGCTGCAGTAGAGTAGACCAC
1 GATGAATCTTATCTCCCTGAAGCTACAGTAGAGCAGACCAC
* * *
43909145 GATGAATCTTATCTCCCTGAAGTTACAGTGGAGCGGACCA
1 GATGAATCTTATCTCCCTGAAGCTACAGTAGAGCAGACCA
43909185 AAATAATGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (41 bp):
GATGAATCTTATCTCCCTGAAGCTACAGTAGAGCAGACCAC
Done.