Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003614.1 Hibiscus syriacus cultivar Beakdansim tig00007643_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: 129277
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:379 original size:22 final size:23
Alignment explanation
Indices: 351--394 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
341 TATAACATTA
351 GAAATAA-AATAAATATAATTTT
1 GAAATAATAATAAATATAATTTT
* *
373 GAAATAATATTATATATAATTT
1 GAAATAATAATAAATATAATTT
395 CTAAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (23 bp):
GAAATAATAATAAATATAATTTT
Found at i:6921 original size:25 final size:26
Alignment explanation
Indices: 6893--6942 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
6883 TAAGAAAATT
*
6893 ATATTA-AGAAAATATAATTTTTTAA
1 ATATTATACAAAATATAATTTTTTAA
*
6918 ATATTATTACAAAATTTAATTTTTT
1 ATATTA-TACAAAATATAATTTTTT
6943 TATTCAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
27 15 0.71
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
ATATTATACAAAATATAATTTTTTAA
Found at i:7420 original size:17 final size:18
Alignment explanation
Indices: 7387--7423 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
7377 AATAATTAAC
7387 TATATACAAATAAAATTA
1 TATATACAAATAAAATTA
*
7405 TATATAC-AATACAATTA
1 TATATACAAATAAAATTA
7422 TA
1 TA
7424 ATTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (18 bp):
TATATACAAATAAAATTA
Found at i:7943 original size:22 final size:21
Alignment explanation
Indices: 7918--7958 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7908 AATTTAAATT
*
7918 AAAAAATTAAATAAAACCATAA
1 AAAAAATCAAAT-AAACCATAA
*
7940 AAAAACTCAAATAAACCAT
1 AAAAAATCAAATAAACCAT
7959 TCGATTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAAATCAAATAAACCATAA
Found at i:7944 original size:21 final size:21
Alignment explanation
Indices: 7918--7958 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7908 AATTTAAATT
*
7918 AAAAAA-TTAAATAAAACCATA
1 AAAAAACTCAAAT-AAACCATA
7939 AAAAAACTCAAATAAACCAT
1 AAAAAACTCAAATAAACCAT
7959 TCGATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAAACTCAAATAAACCATA
Found at i:9503 original size:3 final size:3
Alignment explanation
Indices: 9495--9581 Score: 75
Period size: 3 Copynumber: 26.7 Consensus size: 3
9485 TTTTAATTGT
* * *
9495 TTA TTA TTAA TTA TTAA TTA CTA TTA TTA GTTA TTA TTA TCAA TAA TTA
1 TTA TTA TT-A TTA TT-A TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA
*
9544 TTA TTA TTA TTA TTAA TTT TTA TTAA TTAA TTA TTA TT
1 TTA TTA TTA TTA TT-A TTA TTA TT-A TT-A TTA TTA TT
9582 TATTTATGGG
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
3 51 0.71
4 21 0.29
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:9509 original size:7 final size:7
Alignment explanation
Indices: 9487--9585 Score: 73
Period size: 7 Copynumber: 14.3 Consensus size: 7
9477 TGTCCGAGTT
*
9487 TTAATTG
1 TTAATTA
*
9494 TTTATTA
1 TTAATTA
9501 TTAATTA
1 TTAATTA
9508 TTAATTA
1 TTAATTA
*
9515 CT-ATTA
1 TTAATTA
*
9521 TTAGTTA
1 TTAATTA
9528 TT-ATTA
1 TTAATTA
9534 TCAATAATTA
1 T---TAATTA
9544 TT-ATTA
1 TTAATTA
9550 TT-ATTA
1 TTAATTA
9556 TTAATT-
1 TTAATTA
*
9562 TTTATTAA
1 TTAATT-A
9570 TTAATTA
1 TTAATTA
*
9577 TTATTTA
1 TTAATTA
9584 TT
1 TT
9586 TATGGGTAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
6 26 0.35
7 37 0.50
8 5 0.07
9 1 0.01
10 5 0.07
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (7 bp):
TTAATTA
Found at i:9510 original size:10 final size:10
Alignment explanation
Indices: 9495--9585 Score: 82
Period size: 10 Copynumber: 9.2 Consensus size: 10
9485 TTTTAATTGT
9495 TTATT-ATTAA
1 TTATTAATT-A
9505 TTATTAATTA
1 TTATTAATTA
*
9515 CTATT-ATTA
1 TTATTAATTA
9524 GTTATT-ATTA
1 -TTATTAATTA
* *
9534 TCAATAATTA
1 TTATTAATTA
9544 TTATT-ATTA
1 TTATTAATTA
*
9553 TTATTAATTT
1 TTATTAATTA
9563 TTATTAATTAA
1 TTATTAATT-A
*
9574 TTATTATTTA
1 TTATTAATTA
9584 TT
1 TT
9586 TATGGGTAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
9 16 0.24
10 40 0.60
11 11 0.16
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (10 bp):
TTATTAATTA
Found at i:9522 original size:13 final size:13
Alignment explanation
Indices: 9497--9581 Score: 88
Period size: 13 Copynumber: 6.7 Consensus size: 13
9487 TTAATTGTTT
9497 ATTATTAATTATTA
1 ATTATT-ATTATTA
*
9511 ATTACTATTATTA
1 ATTATTATTATTA
* *
9524 GTTATTATTATCA
1 ATTATTATTATTA
9537 A-TA--ATTATT-
1 ATTATTATTATTA
9546 ATTATTATTATTA
1 ATTATTATTATTA
*
9559 ATTTTTATTAATTA
1 ATTATTATT-ATTA
9573 ATTATTATT
1 ATTATTATT
9582 TATTTATGGG
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
9 1 0.02
10 7 0.12
12 8 0.14
13 25 0.43
14 17 0.29
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:9530 original size:16 final size:16
Alignment explanation
Indices: 9495--9581 Score: 88
Period size: 16 Copynumber: 5.3 Consensus size: 16
9485 TTTTAATTGT
9495 TTATTATTAATTATTAA
1 TTATTATTAATTATT-A
*
9512 TTACTATT-ATTAGTTA
1 TTATTATTAATTA-TTA
* *
9528 TTATTATCAATAATTA
1 TTATTATTAATTATTA
9544 TTATTATT-ATTATTAA
1 TTATTATTAATTATT-A
*
9560 TTTTTATTAATTAATTA
1 TTATTATTAATT-ATTA
9577 TTATT
1 TTATT
9582 TATTTATGGG
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
15 5 0.09
16 29 0.51
17 20 0.35
18 3 0.05
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (16 bp):
TTATTATTAATTATTA
Found at i:9547 original size:19 final size:19
Alignment explanation
Indices: 9520--9568 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
9510 AATTACTATT
9520 ATTAGTTATTATTATCAATA
1 ATTA-TTATTATTATCAATA
* *
9540 ATTATTATTATTATTATTA
1 ATTATTATTATTATCAATA
*
9559 ATTTTTATTA
1 ATTATTATTA
9569 ATTAATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTATTATTATTATCAATA
Found at i:11539 original size:29 final size:28
Alignment explanation
Indices: 11484--11552 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
11474 TAATGATCTA
11484 ATAATATAATTAAAATTAAAATTCAAT-ATT
1 ATAAT-TAA-TAAAATTAAAATTCAATGA-T
11514 ATAATTAATAAAATTAAAATCTCAATGAT
1 ATAATTAATAAAATTAAAAT-TCAATGAT
*
11543 ATAAATAATA
1 ATAATTAATA
11553 TCGTCTAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
28 12 0.33
29 18 0.50
30 6 0.17
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (28 bp):
ATAATTAATAAAATTAAAATTCAATGAT
Found at i:16925 original size:34 final size:34
Alignment explanation
Indices: 16882--16952 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
16872 GGAAAAGAGA
16882 AAAACTATAATAAAAATCATGGAGGTTAAATTTT
1 AAAACTATAATAAAAATCATGGAGGTTAAATTTT
16916 AAAACTATAATAAAAATCATGGAGGTTAAATTTT
1 AAAACTATAATAAAAATCATGGAGGTTAAATTTT
16950 AAA
1 AAA
16953 TAAAGATTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (34 bp):
AAAACTATAATAAAAATCATGGAGGTTAAATTTT
Found at i:17393 original size:22 final size:23
Alignment explanation
Indices: 17360--17414 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
17350 TTAATTTACA
17360 AAACAT-TAAATTATAAAAT-ATT
1 AAACATAT-AATTATAAAATAATT
*
17382 AAACATATAATTATAAATTAATT
1 AAACATATAATTATAAAATAATT
17405 AAA-ATATAAT
1 AAACATATAAT
17415 ATTTATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 23 0.77
23 7 0.23
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (23 bp):
AAACATATAATTATAAAATAATT
Found at i:19180 original size:22 final size:20
Alignment explanation
Indices: 19142--19192 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 20
19132 CAAATTTAAA
19142 AATTTAACTAATTTATAATTAT
1 AATTTAA-TAATTTATAATT-T
*
19164 ATATTTAATATTTTATAATTT
1 A-ATTTAATAATTTATAATTT
19185 AATTTAAT
1 AATTTAAT
19193 GGTGCTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 7 0.26
21 2 0.07
22 12 0.44
23 6 0.22
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTAATAATTTATAATTT
Found at i:23517 original size:2 final size:2
Alignment explanation
Indices: 23510--23535 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23500 GTCTTACACC
23510 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
23536 TCCAAGCACA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36236 original size:78 final size:79
Alignment explanation
Indices: 36104--36285 Score: 280
Period size: 78 Copynumber: 2.3 Consensus size: 79
36094 AAACCAATCC
36104 GAGATATCATATGAATCTTCCCAA-AAATACATAGATAATCACACATATTTGATATACCACATGG
1 GAGATATCATATGAATCTT-CCAACAAATACATAGATAATCACACATATTTGATATACCACATGG
*
36168 A-AAAAAAAGTCGCAT
65 ACAAAAAAAGTCAC-T
* *
36183 -ATATATCATATGAATCTTCCAACAAATACATAGATAATCACACATATTTGATATAGCACATGGA
1 GAGATATCATATGAATCTTCCAACAAATACATAGATAATCACACATATTTGATATACCACATGGA
**
36247 CATCAAAAGTCACT
66 CAAAAAAAGTCACT
36261 GAGATATCATATGAATCTTCCAACA
1 GAGATATCATATGAATCTTCCAACA
36286 TGCACCAGAG
Statistics
Matches: 94, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
77 4 0.04
78 58 0.62
79 32 0.34
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (79 bp):
GAGATATCATATGAATCTTCCAACAAATACATAGATAATCACACATATTTGATATACCACATGGA
CAAAAAAAGTCACT
Found at i:37983 original size:10 final size:10
Alignment explanation
Indices: 37968--38026 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
37958 CATTTAATAA
37968 ATAAACGAAC
1 ATAAACGAAC
37978 ATAAACGAAC
1 ATAAACGAAC
** *
37988 ACGAAC-ATAA
1 ATAAACGA-AC
37998 ATGAACACGAAC
1 AT-AA-ACGAAC
38010 ATAAACGAAC
1 ATAAACGAAC
38020 ATAAACG
1 ATAAACG
38027 TTGGAGACCC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 1 0.03
10 29 0.74
11 3 0.08
12 5 0.13
13 1 0.03
ACGTcount: A:0.58, C:0.20, G:0.12, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:37993 original size:16 final size:16
Alignment explanation
Indices: 37972--38020 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
37962 TAATAAATAA
37972 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
37988 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
38004 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
38020 A
1 A
38021 TAAACGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:38788 original size:24 final size:24
Alignment explanation
Indices: 38748--38822 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
38738 GATTGGGTTA
* *
38748 AACATAAAT-GAATGAACATAAATG
1 AACAT-AATCGAACGAACATAAACG
38772 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
** * *
38796 AACATACCCAAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
38820 AAC
1 AAC
38823 GTTCACGAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
23 3 0.07
24 41 0.93
ACGTcount: A:0.55, C:0.21, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:38823 original size:14 final size:14
Alignment explanation
Indices: 38771--38823 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 14
38761 GAACATAAAT
*
38771 GAACATAATCGAAC
1 GAACATAACCGAAC
38785 GAACAT-A---AAC
1 GAACATAACCGAAC
* *
38795 GAACATACCCAAAC
1 GAACATAACCGAAC
38809 GAACATAACCGAAC
1 GAACATAACCGAAC
38823 G
1 G
38824 TTCACGAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
10 9 0.28
13 1 0.03
14 22 0.69
ACGTcount: A:0.51, C:0.26, G:0.13, T:0.09
Consensus pattern (14 bp):
GAACATAACCGAAC
Found at i:46962 original size:14 final size:14
Alignment explanation
Indices: 46943--46970 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46933 GGATGGATTC
46943 AGGGAATATATGAT
1 AGGGAATATATGAT
46957 AGGGAATATATGAT
1 AGGGAATATATGAT
46971 GAGAGCGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (14 bp):
AGGGAATATATGAT
Found at i:50140 original size:25 final size:25
Alignment explanation
Indices: 50112--50162 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
50102 CGATCTCCTG
50112 TTTC-CTCGTCTATCTCTGTTTTTTT
1 TTTCTCTC-TCTATCTCTGTTTTTTT
* *
50137 TTTCTGTCTCTGTCTCTGTTTTTTT
1 TTTCTCTCTCTATCTCTGTTTTTTT
50162 T
1 T
50163 CAGGTTGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.02, C:0.22, G:0.10, T:0.67
Consensus pattern (25 bp):
TTTCTCTCTCTATCTCTGTTTTTTT
Found at i:50603 original size:3 final size:3
Alignment explanation
Indices: 50585--50688 Score: 172
Period size: 3 Copynumber: 34.3 Consensus size: 3
50575 TATATTTATT
* *
50585 TAA TATA TAT TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
50631 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
50679 TAA TAG TAA T
1 TAA TAA TAA T
50689 GTGGGTAAAA
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
3 91 0.97
4 3 0.03
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:51187 original size:114 final size:113
Alignment explanation
Indices: 50832--51650 Score: 1113
Period size: 112 Copynumber: 7.3 Consensus size: 113
50822 CTTCTCTTTT
* ** * *
50832 TTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATCAAATGATGAATTC
1 TTCAGATGAGTTCTTCTCATTATGAACCTTCT-CTGGAAAAGATGATCCATCAATTGATGAATTC
* *
50897 A-AGCAAAAGATTGAACAAGTTCTTCTCAATTATG-ACTTCTTCTTCCTTC
65 AGA-CAAAAGGTTGAACAAATTCTTCTC-ATTATGAACTTCTTCTTCCTTC
* * * *
50946 TTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATG-TGATCCATCAAATGATGAA
1 TTCAGAT---GAGTTCTTCTCATTATGAAC-CTTCTCTGGAAAAGATGATCCATCAATTGATGAA
*
51009 TTCA-AGCAAAA-GTTGAACAAGTTCTTCTCA-TATGAACTTCTTCTT-CTTC
62 TTCAGA-CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
*
51058 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTC
1 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCAA-TTGATGAATTC
*
51123 AGAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
65 AGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
* *
51172 TTCAGATGAGTTCTTCTCATTATGAACATTCTCTGGAAAAGATAATCCATCAATTTGATGAATTC
1 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCAA-TTGATGAATTC
*
51237 AGAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-T-CTTC
65 AGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
*
51284 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTC
1 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCAA-TTGATGAATTC
51349 AGGA-AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-C--C
65 A-GACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
* *
51395 TTCAGATGAGTTCTTCTCATTATGAA-CTTCTCTGGAAAAGCTGATCCATCAAGTGATAGAATT-
1 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCAATTGAT-GAATTC
* * * *
51458 AGGCAGAAGGTTGAACAAATTCGTCTCATTATGAATTTC-TCTTCCTTC
65 AGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
*
51506 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAA-ACTGATCCATCAAGTGATAGAATT
1 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGA-TGATCCATCAATTGAT-GAATT
* *
51570 -AG-CAGAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
64 CAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
51618 TTCAGATGAGTTCTTCTCA-TATGAACCTTCTCT
1 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCT
51651 TGAATATCAA
Statistics
Matches: 660, Mismatches: 23, Indels: 47
0.90 0.03 0.06
Matches are distributed among these distances:
108 8 0.01
109 65 0.10
110 39 0.06
111 118 0.18
112 206 0.31
113 31 0.05
114 134 0.20
115 30 0.05
116 7 0.01
117 20 0.03
118 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (113 bp):
TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCAATTGATGAATTCA
GACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
Found at i:51252 original size:226 final size:223
Alignment explanation
Indices: 50832--51673 Score: 1115
Period size: 226 Copynumber: 3.8 Consensus size: 223
50822 CTTCTCTTTT
* ** * * *
50832 TTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATCAAATGATGAATTC
1 TTCAGATGAGTTCTTCTCATTATGAACCTTCT-CTGGAAAAGATAATCCATCAATTGATGAATTC
* * *
50897 A-AGCAAAAGATTGAACAAGTTCTTCTCAATTATG-ACTTCTTCTTCCTTCTTCAGATGACGAGT
65 AGA-AAAAAGGTTGAACAAATTCTTCTC-ATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGT
* *
50960 TCTTCTCATTATGAAC-TCTACCTGGCAATGTGATCCATCAAATGATGAATTCA-AGCAAAA-GT
125 TCTTCTCATTATGAACTTCT--CTGGAAAAGTGATCCATCAAATGATGAATTCAGA-CAAAAGGT
*
51022 TGAACAAGTTCTTCTCA-TATGAACTTCTTCTTCTTC
187 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTC
51058 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTC
1 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAA-TTGATGAATTC
51123 AGAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
65 AGAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
51188 TCATTATGAACATTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGAAAAAAGGTTGAAC
130 TCATTATGAAC-TTCTCTGGAAAAG-TGATCCATCAA-ATGATGAATTCAGACAAAAGGTTGAAC
51253 AAATTCTTCTCATTATGAACTTCTTC-TCTTC
192 AAATTCTTCTCATTATGAACTTCTTCTTCTTC
51284 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTC
1 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAA-TTGATGAATTC
*
51349 AGGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-C--CTTCAGATGAGTTCTTC
65 AGAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
51411 TCATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATAGAATT-AGGCAGAAGGTTGAACA
130 TCATTATGAACTTCTCTGGAAAAG-TGATCCATCAAATGAT-GAATTCAGACAAAAGGTTGAACA
* *
51475 AATTCGTCTCATTATGAATTTC-TCTTCCTTC
193 AATTCTTCTCATTATGAACTTCTTCTT-CTTC
* *
51506 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAA-ACTGATCCATCAAGTGATAGAATT
1 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGA-TAATCCATCAATTGAT-GAATT
* * *
51570 -AG-CAGAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTT
64 CAGAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
* * *
51633 CTCA-TATGAACCTTCTCTTGAATA-TCAATCCATCAAATGAT
129 CTCATTATGAA-CTTCTCTGGAAAAGT-GATCCATCAAATGAT
51674 AGATTTGAAT
Statistics
Matches: 563, Mismatches: 33, Indels: 44
0.88 0.05 0.07
Matches are distributed among these distances:
220 40 0.07
221 48 0.09
222 106 0.19
223 86 0.15
224 10 0.02
225 42 0.07
226 217 0.39
227 14 0.02
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (223 bp):
TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCA
GAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACTTCTCTGGAAAAGTGATCCATCAAATGATGAATTCAGACAAAAGGTTGAACAAAT
TCTTCTCATTATGAACTTCTTCTTCTTC
Found at i:51390 original size:17 final size:17
Alignment explanation
Indices: 51368--51425 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
51358 GTTGAACAAA
51368 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
* *
51385 TTCTTCTTCCTTCA-GATGAG
1 TTCTTC-TCATT-ATGA--AC
51405 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
51422 TTCT
1 TTCT
51426 CTGGAAAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
17 11 0.34
18 7 0.22
19 7 0.22
20 7 0.22
ACGTcount: A:0.19, C:0.24, G:0.09, T:0.48
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:52560 original size:166 final size:165
Alignment explanation
Indices: 52318--53117 Score: 1256
Period size: 165 Copynumber: 4.9 Consensus size: 165
52308 AGTTCTTACC
52318 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
52383 TCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
66 TCAATGATTGGTTCTGCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
* *
52448 CATATTCATCTTCCCAATTCAATGATTGGTTCTGCT
130 CAAATTCATCTTCCAAATTCAATGATTGGTTCTGCT
* * * *
52484 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
52549 TCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
66 TCAATGATTGGTTCTG-CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
* *
52614 CACATTCATCTTCCCAATTCAATGATTGGTTCTGCT
130 CAAATTCATCTTCCAAATTCAATGATTGGTTCTGCT
* *
52650 AAACCAGGTCAGATAACTCAAAG-ACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
* * * *
52714 TCAATGATTGGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAA
66 TCAATGATTGGTTCTGC-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
*
52779 CAAATTCATCTTCTAAATTCAATGATT-GTTCTG-T
130 CAAATTCATCTTCCAAATTCAATGATTGGTTCTGCT
*
52813 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCAA
1 -AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
* * * *
52878 TTCAATGATTGGTT-TGCTAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTA-
65 TTCAATGATTGGTTCTGCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
*
52941 CAAATTCATCTTCTAAATTCAATGATTGGTTCTGCT
130 CAAATTCATCTTCCAAATTCAATGATTGGTTCTGCT
* * * *
52977 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATT-ATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
53041 TCAATGATT-GTTCTGTCCAACCAGATCAGATAACTCAAAGAAACACTTCCAGAAGATGCTATTG
66 TCAATGATTGGTTCTG-CCAACCAGATCAGATAACTCAAAG-AACACTTCCAGAAGATGCTA-TG
53105 -GCAAATTCATCTT
128 AGCAAATTCATCTT
53118 TCAGTTAATG
Statistics
Matches: 593, Mismatches: 30, Indels: 23
0.92 0.05 0.04
Matches are distributed among these distances:
161 3 0.01
162 47 0.08
163 123 0.21
164 52 0.09
165 186 0.31
166 180 0.30
167 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (165 bp):
AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
TCAATGATTGGTTCTGCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
AAATTCATCTTCCAAATTCAATGATTGGTTCTGCT
Found at i:52713 original size:82 final size:83
Alignment explanation
Indices: 52318--53117 Score: 1235
Period size: 83 Copynumber: 9.7 Consensus size: 83
52308 AGTTCTTACC
*
52318 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
*
52383 TCAATGATTGGTTCTGCC
66 TCAATGATTGGTTCTGCT
* *
52401 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCCAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
52466 TCAATGATTGGTTCTGCT
66 TCAATGATTGGTTCTGCT
* * *
52484 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
52549 TCAATGATTGGTTCTG-T
66 TCAATGATTGGTTCTGCT
* * *
52566 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCAA
1 -AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAA
52631 TTCAATGATTGGTTCTGCT
65 TTCAATGATTGGTTCTGCT
* * *
52650 AAACCAGGTCAGATAACTCAAAG-ACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
52714 TCAATGATTGGTTCTGCT
66 TCAATGATTGGTTCTGCT
* * * *
52732 AAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
52797 TCAATGATT-GTTCTG-T
66 TCAATGATTGGTTCTGCT
* *
52813 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCAA
1 -AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAA
52878 TTCAATGATTGGTT-TGCT
65 TTCAATGATTGGTTCTGCT
* * * *
52896 -AACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTA-CAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
52959 TCAATGATTGGTTCTGCT
66 TCAATGATTGGTTCTGCT
* * *
52977 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATT-ATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
53041 TCAATGATT-GTTCTG-T
66 TCAATGATTGGTTCTGCT
*
53057 CCAACCAGATCAGATAACTCAAAGAAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTT
1 -AAACCAGATCAGATAACTCAAAG-AACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTT
53118 TCAGTTAATG
Statistics
Matches: 666, Mismatches: 38, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
80 29 0.04
81 75 0.11
82 248 0.37
83 313 0.47
84 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (83 bp):
AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAAT
TCAATGATTGGTTCTGCT
Found at i:53848 original size:17 final size:15
Alignment explanation
Indices: 53826--53868 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
53816 ATCATAGAAG
*
53826 AATAAATGAATTTCCAA
1 AATAAATGAATCT-C-A
53843 AATAAATTGAATCTCA
1 AATAAA-TGAATCTCA
53859 AATAAATGAA
1 AATAAATGAA
53869 CTTGAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 7 0.29
17 7 0.29
18 6 0.25
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (15 bp):
AATAAATGAATCTCA
Found at i:66646 original size:12 final size:11
Alignment explanation
Indices: 66629--66664 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
66619 GGTCTGTAAT
66629 TATTTATTTATA
1 TATTTATTTA-A
66641 TATTTATTTAA
1 TATTTATTTAA
*
66652 TATATATTTAA
1 TATTTATTTAA
66663 TA
1 TA
66665 ATAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:66668 original size:3 final size:3
Alignment explanation
Indices: 66660--66738 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
66650 AATATATATT
66660 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
66708 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
66739 GTGGGTAAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:76681 original size:2 final size:2
Alignment explanation
Indices: 76674--76704 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
76664 ATTGTAACAT
*
76674 TC TC TC TC TC TC TC CC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
76705 GTATTTTACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:81019 original size:105 final size:105
Alignment explanation
Indices: 80653--81751 Score: 1829
Period size: 105 Copynumber: 10.4 Consensus size: 105
80643 TTCAACTTCT
*
80653 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* *
80718 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCC
* *
80759 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGACATTGGACTCCAGGCAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
*
80824 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCC
*
80865 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
80930 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCC
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCC
*
80970 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* *
81035 TTCACGAAGAAGGGACCGCTGGTTGTCAACAAACATTTCT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCC
* * *
81075 CGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
*
81140 TTCACGACGAAGGGACTGCTGGTTGTCAACAAACATTTCC
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCC
*
81180 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* * *
81245 TTCATGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCC
* *
81286 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGACATTGGACTCCAGGCAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
81351 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCC
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCC
* *
81391 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* *
81456 TTCACGACGAAGGGACCGCTGGTTGTCAGCAAACATTTCT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCC
* * *
81496 CGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
*
81561 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCC
* *
81601 CGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
*
81666 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTTC
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCC
* * * ** *
81707 CAGTTCCATAGCCAATTTCAACTTCACGGCGGAGGATATTGGACT
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
81752 TGGAACAATA
Statistics
Matches: 937, Mismatches: 54, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
105 599 0.64
106 338 0.36
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (105 bp):
CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
TTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCC
Found at i:81297 original size:316 final size:316
Alignment explanation
Indices: 80647--81751 Score: 1847
Period size: 316 Copynumber: 3.5 Consensus size: 316
80637 GTAAATTTCA
*
80647 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAG
1 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
80712 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTT
66 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
* *
80777 CAACTTCACAACGAAGGACATTGGACTCCAGGCAACGCAAGTTCAACTTCACGACGAAGGGACCG
131 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
* *
80842 CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
196 CTGGTTGTCAACAAAC-ATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
80907 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC
260 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC
* * *
80964 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
1 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
81029 TTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCGATTTCAGAGTCAATTT
66 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
* *
81093 CAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACTG
131 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
81158 CTGGTTGTCAACAAACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
196 CTGGTTGTCAACAAACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
* *
81223 CTCCAGACAATGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAAC
261 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC
* *
81279 AACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGACATTGGACTCCAGGCAACGCAA
1 -ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAA
*
81344 GTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCCCAATTTCAGAGCCAATT
65 GTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATT
* *
81408 TCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACC
130 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
* * * *
81473 GCTGGTTGTCAGCAAACATTTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGG
195 GCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
81538 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC
260 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC
* * *
81595 ATTTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
81660 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTT-TCCAGTTCCATAGCCAATT
66 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCT-CAATTTCAGAGCCAATT
** *
81724 TCAACTTCACGGCGGAGGATATTGGACT
130 TCAACTTCACAACGAAGGATATTGGACT
81752 TGGAACAATA
Statistics
Matches: 738, Mismatches: 47, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
315 201 0.27
316 437 0.59
317 100 0.14
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (316 bp):
ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
CTGGTTGTCAACAAACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC
Found at i:81440 original size:421 final size:421
Alignment explanation
Indices: 80649--81751 Score: 1938
Period size: 421 Copynumber: 2.6 Consensus size: 421
80639 AAATTTCAAC
* * *
80649 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTT
1 TTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
*
80714 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCA
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCA
* *
80779 ACTTCACAACGAAGGACATTGGACTCCAGGCAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
130 ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
*
80844 GGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
195 GGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
80909 TCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAAT
260 TCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAAT
80974 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
325 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
81039 CGAAGAAGGGACCGCTGGTTGTCAACAAACAT
390 CGAAGAAGGGACCGCTGGTTGTCAACAAACAT
*
81071 TTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTT
1 TTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
* *
81136 CAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCCAATTTCAA
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAA
* *
81201 CTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCATGACGAAGGGACCGCTG
131 CTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
* *
81266 GTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGACATTGGACT
196 GTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
*
81331 CCAGGCAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATT
261 CCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATT
*
81396 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCAC
326 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* *
81461 GACGAAGGGACCGCTGGTTGTCAGCAAACAT
391 GAAGAAGGGACCGCTGGTTGTCAACAAACAT
*
81492 TTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTT
1 TTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
* *
81557 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCGATTTCAGAGTCAATTTCAA
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAA
81622 CTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
131 CTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
* * * * * *
81687 GTTGTCAACAAACAA-TTTTCCAGTTCCATAGCCAATTTCAACTTCACGGCGGAGGATATTGGAC
196 GTTGTCAACAAACAACTTCT-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
81751 T
260 T
81752 TGGAACAATA
Statistics
Matches: 646, Mismatches: 34, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
420 3 0.00
421 545 0.84
422 98 0.15
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (421 bp):
TTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAA
CTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
GTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
CCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATT
TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
GAAGAAGGGACCGCTGGTTGTCAACAAACAT
Found at i:82109 original size:81 final size:80
Alignment explanation
Indices: 81950--82110 Score: 178
Period size: 81 Copynumber: 2.0 Consensus size: 80
81940 TGTCTGCCAA
* * * ** * * *
81950 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATGTACAGCATAACTCAAGGC
*
82015 GAGAAGGGCTATCTG
66 GAGAAGAGCTATCTG
* * * *
82030 CCAAAGACCTTCGGGTTCGATTATACTCAGCTCCGAGGGCACATCATGTACAGCATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACACTCAGCTCC-AAGGCACATCATGTACAGCATAACTCAAGG
* *
82095 CTAGAAGAGTTATCTG
65 CGAGAAGAGCTATCTG
82111 TCAACAAAAA
Statistics
Matches: 65, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
80 29 0.45
81 36 0.55
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (80 bp):
CCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATGTACAGCATAACTCAAGGC
GAGAAGAGCTATCTG
Found at i:82161 original size:21 final size:21
Alignment explanation
Indices: 82135--82203 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
82125 TGAGATTGTT
*
82135 TCCCTTGAGACAAATTTCGTC
1 TCCCTTGAGACAAAATTCGTC
*
82156 TCCCTTGAGAC--AGTT--TC
1 TCCCTTGAGACAAAATTCGTC
*
82173 T--CTTGAAACAAAATTCGTC
1 TCCCTTGAGACAAAATTCGTC
82192 TCCCTTGAGACA
1 TCCCTTGAGACA
82204 GTTTCCCTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
15 7 0.18
17 6 0.16
19 6 0.16
21 19 0.50
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (21 bp):
TCCCTTGAGACAAAATTCGTC
Found at i:82172 original size:36 final size:36
Alignment explanation
Indices: 82132--82253 Score: 174
Period size: 36 Copynumber: 3.4 Consensus size: 36
82122 CTTTGAGATT
*
82132 GTTTCCCTTGAGACAAATTTCGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
* *
82168 GTTTCTCTTGAAACAAAATTCGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
*
82204 GTTTCCCTTGAAACAAATTGGT-GTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATT--TCGTCTCCCTTGAGACA
*
82241 GTTTCTCTTGAAA
1 GTTTCCCTTGAAA
82254 TGCCAAAGAC
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
36 50 0.65
37 26 0.34
38 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
Found at i:82430 original size:84 final size:84
Alignment explanation
Indices: 82258--82507 Score: 331
Period size: 84 Copynumber: 3.0 Consensus size: 84
82248 TTGAAATGCC
* * * * * * *
82258 AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTGCAGCATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCG
* * *
82323 AGAAGGGTTATATGTC-ACC
65 AGAAGGGTTATCTGCCAACA
* *
82342 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGTATATCATTTGCAGCATAACTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
82407 GAAGGGTTATCTGCCAACA
66 GAAGGGTTATCTGCCAACA
* * * *
82426 AAAGACCTTTGAGTTTGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
82491 GAAGGGCTATCTGCCAA
66 GAAGGGTTATCTGCCAA
82508 AGACCCCTGG
Statistics
Matches: 146, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
83 39 0.27
84 107 0.73
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (84 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
GAAGGGTTATCTGCCAACA
Found at i:85570 original size:153 final size:153
Alignment explanation
Indices: 85217--85591 Score: 445
Period size: 154 Copynumber: 2.4 Consensus size: 153
85207 AATATTTTAG
* * * * *
85217 GTTGATCCTAAAATATTATCAGAGTTAACAAAATAAGTCGAAATTAAATATGTTAGGACTATCTA
1 GTTGCTCCTAAAATATTATCAGAGTTAACAAAATAGGT-TAAACTAAATATGTTAGGAATATCTA
* * * * *
85282 TAAGAAATTCGGTTGAGCCAATAATATTAAGGTTTACAAAGAAGTAAATTGCGATCTGGAATGTT
65 TAAGAAATTCGGTTGAGCAAAGAATATTAAGGTTCACAAAGAAGTAAATTGCAATCTAGAATGTT
*
85347 AATTTTTTTTATGTAATAAAAGCA
130 AATTTTTCTTATGTAATAAAAGCA
*
85371 GTTGCTCCTAAAATATTACCAGAGTTAACAAAATAGGTTAAAACTAAATATGTTAGGAATATCTA
1 GTTGCTCCTAAAATATTATCAGAGTTAACAAAATAGGTT-AAACTAAATATGTTAGGAATATCTA
* *** *
85436 TAAGAAATTCGGTTGCA-CTAAAGAATGTTAAGGTTCACAAAGAAGTGGTTTTCAATCTAGAATG
65 TAAGAAATTCGGTTG-AGC-AAAGAATATTAAGGTTCACAAAGAAGTAAATTGCAATCTAGAATG
*
85500 TTAA-TTTTCTT-TGTAATAAAATC-
128 TTAATTTTTCTTATGTAATAAAAGCA
* * * * *
85523 GATTG-TACCTAGAATGTTATCAGAGTTAACCAAATAGGTTAAGACTAAATATGTTATGAAAATC
1 G-TTGCT-CCTAAAATATTATCAGAGTTAACAAAATAGGTTAA-ACTAAATATGTTAGGAATATC
85587 TATAA
63 TATAA
85592 AAAAAAATCG
Statistics
Matches: 191, Mismatches: 24, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
152 4 0.02
153 67 0.35
154 80 0.42
155 40 0.21
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (153 bp):
GTTGCTCCTAAAATATTATCAGAGTTAACAAAATAGGTTAAACTAAATATGTTAGGAATATCTAT
AAGAAATTCGGTTGAGCAAAGAATATTAAGGTTCACAAAGAAGTAAATTGCAATCTAGAATGTTA
ATTTTTCTTATGTAATAAAAGCA
Found at i:86141 original size:20 final size:21
Alignment explanation
Indices: 86102--86141 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
86092 ATGATATGAC
86102 TACAAAGTATCGATACTTTTA
1 TACAAAGTATCGATACTTTTA
* *
86123 TACAAA-TATTGATATTTTT
1 TACAAAGTATCGATACTTTT
86142 GAATTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
TACAAAGTATCGATACTTTTA
Found at i:86174 original size:71 final size:73
Alignment explanation
Indices: 86040--86203 Score: 224
Period size: 71 Copynumber: 2.3 Consensus size: 73
86030 GCATAATATT
* * * *
86040 GATATTTTTACACAAATATTGATACTTTTTTAATCTAAAAAAAACATGAAAAATGATATGACTAC
1 GATAATTTTATACAAATATTGATACTTTTTGAATCTAAAAAAAACATGAAAAATGATAAGACTAC
*
86105 AAAGTATC
66 AAAGTACC
* * * *
86113 GATACTTTTATACAAATATTGATA-TTTTTGAAT-TGAAAAAAATATTAAAAATGATAAGACTAC
1 GATAATTTTATACAAATATTGATACTTTTTGAATCTAAAAAAAACATGAAAAATGATAAGACTAC
86176 AAAGTACC
66 AAAGTACC
*
86184 GATAATTTTATGCAAATATT
1 GATAATTTTATACAAATATT
86204 TGAAGCTTTG
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
71 51 0.63
72 8 0.10
73 22 0.27
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.35
Consensus pattern (73 bp):
GATAATTTTATACAAATATTGATACTTTTTGAATCTAAAAAAAACATGAAAAATGATAAGACTAC
AAAGTACC
Found at i:86616 original size:3 final size:3
Alignment explanation
Indices: 86610--86667 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
86600 TCAATTTACT
86610 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
86658 CTA TTA TTA T
1 TTA TTA TTA T
86668 ATGTGTGTGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:86616 original size:23 final size:24
Alignment explanation
Indices: 86570--86621 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
86560 TCAACAATCA
86570 TATTAATCAATGTACTTTTATTAT
1 TATTAATCAATGTACTTTTATTAT
*
86594 TATTAATCAATTTAC-TTTATTAT
1 TATTAATCAATGTACTTTTATTAT
86617 TATTA
1 TATTA
86622 TTATTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.56
Consensus pattern (24 bp):
TATTAATCAATGTACTTTTATTAT
Found at i:97425 original size:2 final size:2
Alignment explanation
Indices: 97418--97476 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
97408 ACGGTGCATA
97418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97460 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
97477 GAAAAGTTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:97704 original size:29 final size:29
Alignment explanation
Indices: 97672--97736 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
97662 AAATAGTTGC
*
97672 ATGATGTGGCTTTTTATTAATATATAATG
1 ATGATGTAGCTTTTTATTAATATATAATG
* ** * *
97701 ATGATATATTTTTTTATTAATATTTAATT
1 ATGATGTAGCTTTTTATTAATATATAATG
97730 ATGATGT
1 ATGATGT
97737 CTAATATTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (29 bp):
ATGATGTAGCTTTTTATTAATATATAATG
Found at i:98363 original size:20 final size:18
Alignment explanation
Indices: 98316--98365 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
98306 AAAGAAATAA
98316 AAAGAA-GAAGAATAGAAAG
1 AAAGAAGGAA-AAT-GAAAG
98335 AAAGAAGGAAAATGAAAG
1 AAAGAAGGAAAATGAAAG
98353 CAAATGAAGGAAA
1 -AAA-GAAGGAAA
98366 TTCCGAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.18
19 12 0.43
20 11 0.39
ACGTcount: A:0.66, C:0.02, G:0.26, T:0.06
Consensus pattern (18 bp):
AAAGAAGGAAAATGAAAG
Found at i:101784 original size:237 final size:225
Alignment explanation
Indices: 101223--102845 Score: 1371
Period size: 237 Copynumber: 7.1 Consensus size: 225
101213 GCTACTACCG
* *
101223 CCATAACTTCCTAGGCCTCCATAACTACTACCACTTCCACCAGTGTTACCATATCCAACATTACC
1 CCATAACTTCCTAGGCCTCCATAACCACTACCACTGCCACCAGTGTTACCATATCCAACATTACC
* *
101288 ACCACCGACTCCCATTCGTTTACCTCCAAATCCGGCTGAACCACTGGTGGCAAAACTGTCACTGG
66 ACCACCGAATCCCATTCGTTTACCTCCAAATCCGGCTGAACCACTGGTGGCAAAACTGTCACCGG
* *
101353 CGACAGCATTGAGATTCCCACCATCAAACTTGTTTGGACCAGATTGACCAGAATTGCTTCCGTAG
131 CGACAGCATTGAGATTCCCACCATCATACTTGTTTGGACCAGATTGATCAGAATTGCTTCCGTAG
*
101418 CTACCACCAGTTCCATACTTGTTACCACCA
196 CTACCACCAGTGCCATACTTGTTACCACCA
*
101448 CCATAACTTCCTAGGCCTCCATAACCACTACCACTGCCACCAGTGTTACCATATCCAACATTACT
1 CCATAACTTCCTAGGCCTCCATAACCACTACCACTGCCACCAGTGTTACCATATCCAACATTACC
* * * *
101513 GCCGCCGAATCCCATTCGTTTACCTCCGAATCCGGCTGAACCGCTGGTGGCAAAACTACCACCAC
66 ACCACCGAATCCCATTCGTTTACCTCCAAATCCGGCTGAACCACTGGTGGCAAAACT--------
* * *
101578 CGATTTCGCCGGTGACAGCATTGAGATTCCCACCATCGTACTTGTTTGGACCAGATTGATCAGAA
123 -G---TCACCGGCGACAGCATTGAGATTCCCACCATCATACTTGTTTGGACCAGATTGATCAGAA
* *
101643 TTGCTTCCATAGCTACCGCCAGTGCCATACTTGTTACCACCA
184 TTGCTTCCGTAGCTACCACCAGTGCCATACTTGTTACCACCA
*
101685 CCATAACTTCCTAGGCCCCCATAACCACTACCACCT-CCACCAGTGTTACCATATCCAACATTAC
1 CCATAACTTCCTAGGCCTCCATAACCACTACCA-CTGCCACCAGTGTTACCATATCCAACATTAC
* *
101749 CACCACCGAATCCCATTTGTTTACTTCCAAATCCGGCTGAACCACTGGTGGCAAAACTGTCACCG
65 CACCACCGAATCCCATTCGTTTACCTCCAAATCCGGCTGAACCACTGGTGGCAAAACTGTCACCG
* * *
101814 GCAACAGCATTGAGATTCCCACCATCATACTTGTTTGGACTAGATTGATTAGAATTGCTTCCGTA
130 GCGACAGCATTGAGATTCCCACCATCATACTTGTTTGGACCAGATTGATCAGAATTGCTTCCGTA
*
101879 GCTACCACCGGTGCCATACTTGTTACCACCA
195 GCTACCACCAGTGCCATACTTGTTACCACCA
* * * * * * * ****
101910 GCATAACTTCCTTGGCCTCCATAACCGCTTCC-C--CCACC------ACCAAATCCCATATGGTT
1 CCATAACTTCCTAGGCCTCCATAACCACTACCACTGCCACCAGTGTTACCATATCCAACATTACC
* * * * * * * * * ** * *
101966 ACCTCCAAAT-CC---GGCTGA--ACC--AT-TGG-TGGCAA-AACT-ATCACCACCAA-TGCCA
66 ACCACCGAATCCCATTCGTTTACCTCCAAATCCGGCT-G-AACCACTGGT-GGCA-AAACTGTCA
* * *
102018 CCGGCGGCAGCATTGA-A--CCCACCATCGTACTTGTTTGGACCAGATTGATCAGAGTTGCTTCC
127 CCGGCGACAGCATTGAGATTCCCACCATCATACTTGTTTGGACCAGATTGATCAGAATTGCTTCC
* * * *
102080 ATAGCTACCACCAGCGCCATCCTTGTTACCATCA
192 GTAGCTACCACCAGTGCCATACTTGTTACCACCA
* *
102114 CCATAACTTCCTTGGCCTCCATAACCACTACCACCGCCACCAGTGTTACCATATCCAACATTACC
1 CCATAACTTCCTAGGCCTCCATAACCACTACCACTGCCACCAGTGTTACCATATCCAACATTACC
* * * ** * * * * * *
102179 GCCACCGAATCCCATTTGGTTACCTCTGAAGCCGGCTGAACCAATAGTGGAAAAATTATCACCAC
66 ACCACCGAATCCCATTCGTTTACCTCCAAATCCGGCTGAACCACTGGTGGCAAAACTGT---CAC
* * * *
102244 CGATATCACCAGCAGCAGCATTGAAATTCCCACCATCGTACTTGTTTAGACCAGATTGATCAGAA
128 CG------GC-G-A-CAGCATTGAGATTCCCACCATCATACTTGTTTGGACCAGATTGATCAGAA
* * *
102309 TTGCTTCCATAGCTACCACCAATGCCATACTTGTTACCTCCA
184 TTGCTTCCGTAGCTACCACCAGTGCCATACTTGTTACCACCA
* * * * * * *
102351 CCATAACTTCCTTGGCCTCCATGACCACTACCAAC-ACCACAAGTCTTCCCATATCCAACATTAT
1 CCATAACTTCCTAGGCCTCCATAACCACTACC-ACTGCCACCAGTGTTACCATATCCAACATTAC
* * * * * * *
102415 CGCCACCAAATCCCATTTGGTTACCTCCGAATCCAGCTGAACCACTGGTGGCAAAACTATCACCG
65 CACCACCGAATCCCATTCGTTTACCTCCAAATCCGGCTGAACCACTGGTGGCAAAACTGTCACCG
* * * * ** **
102480 CCAATGTTGCCGGC-TGGAGCATTGAACCCACCATCGCACTTGTTTGGACCAGATTGATCAGAGC
130 -----G-CGACAGCATTGAG-ATT---CCCACCATCATACTTGTTTGGACCAGATTGATCAGAAT
* *
102544 TGCTTTCGTAGCTACCACCAGCGCCATACTTGTTACCACCA
185 TGCTTCCGTAGCTACCACCAGTGCCATACTTGTTACCACCA
* * *
102585 CCATAACTTCCTTGACTTCCAT----A--ACCACT---ACCAGTGTTACCATATCCAACATTACC
1 CCATAACTTCCTAGGCCTCCATAACCACTACCACTGCCACCAGTGTTACCATATCCAACATTACC
* * * ** * **
102641 TCCACCGAATTCCATT-ATGTTACCTCTGAATCCAGCTGAACTGCTGGTGGCAAAACTATTGCCA
66 ACCACCGAATCCCATTCGT-TTACCTCCAAATCCGGCTGAACCACTGGTGGC--AA--A-----A
** * ** *
102705 CTGCTTTCACCGGC-AGCAAAATTGAAATTCCCACCATCGCAATTGTTTGGACCAGATTGATCAG
121 CTG---TCACCGGCGA-CAGCATTGAGATTCCCACCATCATACTTGTTTGGACCAGATTGATCAG
* * * * *
102769 AACTGCTTCCATAGCTACCACCAGTACCATAATTGTTTCCACCA
182 AATTGCTTCCGTAGCTACCACCAGTGCCATACTTGTTACCACCA
* * *
102813 CCATAGCTTCCTTGGCCTCCATAACCACCACCA
1 CCATAACTTCCTAGGCCTCCATAACCACTACCA
102846 GTGTTACCAT
Statistics
Matches: 1141, Mismatches: 175, Indels: 155
0.78 0.12 0.11
Matches are distributed among these distances:
204 99 0.09
205 1 0.00
206 3 0.00
207 31 0.03
208 6 0.01
210 2 0.00
212 3 0.00
213 18 0.02
214 2 0.00
215 2 0.00
216 19 0.02
217 3 0.00
219 1 0.00
221 5 0.00
222 12 0.01
223 3 0.00
225 304 0.27
227 4 0.00
228 94 0.08
229 1 0.00
230 4 0.00
231 11 0.01
232 6 0.01
233 1 0.00
234 112 0.10
235 1 0.00
237 389 0.34
238 4 0.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.25
Consensus pattern (225 bp):
CCATAACTTCCTAGGCCTCCATAACCACTACCACTGCCACCAGTGTTACCATATCCAACATTACC
ACCACCGAATCCCATTCGTTTACCTCCAAATCCGGCTGAACCACTGGTGGCAAAACTGTCACCGG
CGACAGCATTGAGATTCCCACCATCATACTTGTTTGGACCAGATTGATCAGAATTGCTTCCGTAG
CTACCACCAGTGCCATACTTGTTACCACCA
Found at i:102429 original size:666 final size:670
Alignment explanation
Indices: 101351--102610 Score: 1812
Period size: 666 Copynumber: 1.9 Consensus size: 670
101341 AACTGTCACT
*
101351 GGCGACAGCATTGAGATTCCCACCATCAAACTTGTTTGGACCAGATTGACCAGAATTGCTTCCGT
1 GGCGACAGCATTGAGA-TCCCACCATCAAACTTGTTTGGACCAGATTGACCAGAATTGCTTCCAT
**
101416 AGCTACCACCAGTTCCATACTTGTTACCACCACCATAACTTCCTAGGCCTCCATAACCACTACCA
65 AGCTACCACCAGCGCCATACTTGTTACCACCACCATAACTTCCTAGGCCTCCATAACCACTACCA
* * * * *
101481 CTGCCACCAGTGTTACCATATCCAACATTACTGCCGCCGAATCCCATTCGTTTACCTCCGAATCC
130 CCGCCACCAGTGTTACCATATCCAACATTACCGCCACCGAATCCCATTCGGTTACCTCCGAAGCC
** * * * * ** *
101546 GGCTGAACCGCTGGTGGCAAAACTACCACCACCGATTTCGCCGGTGACAGCATTGAGATTCCCAC
195 GGCTGAACCAATAGTGGAAAAACTACCACCACCGATATCACCGCAGACAGCATTGAAATTCCCAC
* * *
101611 CATCGTACTTGTTTGGACCAGATTGATCAGAATTGCTTCCATAGCTACCGCCAGTGCCATACTTG
260 CATCGTACTTGTTTAGACCAGATTGATCAGAATTGCTTCCATAGCTACCACCAATGCCATACTTG
* * * *
101676 TTACCACCACCATAACTTCCTAGGCCCCCATAACCACTACCACCTCCACCAGTGTTACCATATCC
325 TTACCACCACCATAACTTCCTAGGCCCCCATAACCACTACCAACACCACAAGTCTTACCATATCC
* * * *
101741 AACATTACCACCACCGAATCCCATTTGTTTACTTCCAAATCCGGCTGAACCACTGGTGGCAAAAC
390 AACATTACCACCACCAAATCCCATTTGGTTACCTCCAAATCCAGCTGAACCACTGGTGGCAAAAC
* * * * * *
101806 TGTCACCGGCAA-CAGCATTGAG-ATT-CCCACCATCATACTTGTTTGGACTAGATTGATTAGAA
455 TATCACCGCCAATCAGC-TGGAGCATTACCCACCATCACACTTGTTTGGACCAGATTGATCAGAA
* * * * *
101868 TTGCTTCCGTAGCTACCACCGGTGCCATACTTGTTACCACCAGCATAACTTCCTTGGCCTCCATA
519 CTGCTTCCGTAGCTACCACCAGCGCCATACTTGTTACCACCACCATAACTTCCTTGACCTCCATA
101933 ACCGCTTCCCCCACCACCAAATCCCATATGGTTACCTCCAAATCCGGCTGAACCATTGGTGGCAA
584 ACCGCTTCCCCCACCACCAAATCCCATATGGTTACCTCCAAATCCGGCTGAACCATTGGTGGCAA
101998 AACTATCACCACCAATGCCACC
649 AACTATCACCACCAATGCCACC
* ** * *
102020 GGCGGCAGCATTGA-A-CCCACCATCGTACTTGTTTGGACCAGATTGATCAGAGTTGCTTCCATA
1 GGCGACAGCATTGAGATCCCACCATCAAACTTGTTTGGACCAGATTGACCAGAATTGCTTCCATA
* * *
102083 GCTACCACCAGCGCCATCCTTGTTACCATCACCATAACTTCCTTGGCCTCCATAACCACTACCAC
66 GCTACCACCAGCGCCATACTTGTTACCACCACCATAACTTCCTAGGCCTCCATAACCACTACCAC
* *
102148 CGCCACCAGTGTTACCATATCCAACATTACCGCCACCGAATCCCATTTGGTTACCTCTGAAGCCG
131 CGCCACCAGTGTTACCATATCCAACATTACCGCCACCGAATCCCATTCGGTTACCTCCGAAGCCG
* *
102213 GCTGAACCAATAGTGGAAAAATTATCACCACCGATATCACCAGCAG-CAGCATTGAAATTCCCAC
196 GCTGAACCAATAGTGGAAAAACTACCACCACCGATATCACC-GCAGACAGCATTGAAATTCCCAC
102277 CATCGTACTTGTTTAGACCAGATTGATCAGAATTGCTTCCATAGCTACCACCAATGCCATACTTG
260 CATCGTACTTGTTTAGACCAGATTGATCAGAATTGCTTCCATAGCTACCACCAATGCCATACTTG
* * * * *
102342 TTACCTCCACCATAACTTCCTTGGCCTCCATGACCACTACCAACACCACAAGTCTTCCCATATCC
325 TTACCACCACCATAACTTCCTAGGCCCCCATAACCACTACCAACACCACAAGTCTTACCATATCC
* * *
102407 AACATTATCGCCACCAAATCCCATTTGGTTACCTCCGAATCCAGCTGAACCACTGGTGGCAAAAC
390 AACATTACCACCACCAAATCCCATTTGGTTACCTCCAAATCCAGCTGAACCACTGGTGGCAAAAC
* *
102472 TATCACCGCCAATGTTGCCGGCTGGAGCATTGAACCCACCATCGCACTTGTTTGGACCAGATTGA
455 TATCACCGCCAA---T--CAGCTGGAGCATT--ACCCACCATCACACTTGTTTGGACCAGATTGA
* * *
102537 TCAGAGCTGCTTTCGTAGCTACCACCAGCGCCATACTTGTTACCACCACCATAACTTCCTTGACT
513 TCAGAACTGCTTCCGTAGCTACCACCAGCGCCATACTTGTTACCACCACCATAACTTCCTTGACC
102602 TCCATAACC
578 TCCATAACC
102611 ACTACCAGTG
Statistics
Matches: 516, Mismatches: 64, Indels: 16
0.87 0.11 0.03
Matches are distributed among these distances:
666 397 0.77
667 2 0.00
668 1 0.00
669 13 0.03
671 4 0.01
672 6 0.01
675 93 0.18
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (670 bp):
GGCGACAGCATTGAGATCCCACCATCAAACTTGTTTGGACCAGATTGACCAGAATTGCTTCCATA
GCTACCACCAGCGCCATACTTGTTACCACCACCATAACTTCCTAGGCCTCCATAACCACTACCAC
CGCCACCAGTGTTACCATATCCAACATTACCGCCACCGAATCCCATTCGGTTACCTCCGAAGCCG
GCTGAACCAATAGTGGAAAAACTACCACCACCGATATCACCGCAGACAGCATTGAAATTCCCACC
ATCGTACTTGTTTAGACCAGATTGATCAGAATTGCTTCCATAGCTACCACCAATGCCATACTTGT
TACCACCACCATAACTTCCTAGGCCCCCATAACCACTACCAACACCACAAGTCTTACCATATCCA
ACATTACCACCACCAAATCCCATTTGGTTACCTCCAAATCCAGCTGAACCACTGGTGGCAAAACT
ATCACCGCCAATCAGCTGGAGCATTACCCACCATCACACTTGTTTGGACCAGATTGATCAGAACT
GCTTCCGTAGCTACCACCAGCGCCATACTTGTTACCACCACCATAACTTCCTTGACCTCCATAAC
CGCTTCCCCCACCACCAAATCCCATATGGTTACCTCCAAATCCGGCTGAACCATTGGTGGCAAAA
CTATCACCACCAATGCCACC
Found at i:107237 original size:30 final size:30
Alignment explanation
Indices: 107202--107372 Score: 279
Period size: 30 Copynumber: 5.7 Consensus size: 30
107192 AAACTGAACA
* **
107202 GTTGAGAACATATTGCATAATAGCAACGCA
1 GTTGAGAACATATTGCATAATAGCAATGTG
*
107232 TTTGAGAACATATTGCATAATAGCAATGTG
1 GTTGAGAACATATTGCATAATAGCAATGTG
107262 GTTGAGAACATATTGCATAATAGCAATGTG
1 GTTGAGAACATATTGCATAATAGCAATGTG
107292 GTTGAGAACATATTGCATAATAGCAATGTG
1 GTTGAGAACATATTGCATAATAGCAATGTG
* *
107322 GTTGAGAACATATTGCATAATAGCAACGTC
1 GTTGAGAACATATTGCATAATAGCAATGTG
*
107352 GTTGAGAACATATTACATAAT
1 GTTGAGAACATATTGCATAAT
107373 TTCAGTACCA
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 133 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (30 bp):
GTTGAGAACATATTGCATAATAGCAATGTG
Found at i:114720 original size:14 final size:14
Alignment explanation
Indices: 114701--114730 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
114691 CGTTCGTGAA
114701 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
114715 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
114729 CG
1 CG
114731 CTTATGTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.17, G:0.30, T:0.47
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:114749 original size:24 final size:24
Alignment explanation
Indices: 114702--114752 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
114692 GTTCGTGAAC
* * *
114702 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGCTTATGTTCATTCAGTTAT
*
114726 GTTCGCTTATGTTCATTCATTTAT
1 GTTCGCTTATGTTCATTCAGTTAT
114750 GTT
1 GTT
114753 TAACCCAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.14, G:0.22, T:0.53
Consensus pattern (24 bp):
GTTCGCTTATGTTCATTCAGTTAT
Found at i:115842 original size:10 final size:10
Alignment explanation
Indices: 115827--115866 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
115817 GGGTCTCCAA
115827 CGTTTATGTT
1 CGTTTATGTT
115837 CGTTTATGTT
1 CGTTTATGTT
115847 CG----TGTT
1 CGTTTATGTT
115853 CGTTTATGTT
1 CGTTTATGTT
115863 CGTT
1 CGTT
115867 AATTTATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
6 6 0.23
10 20 0.77
ACGTcount: A:0.07, C:0.12, G:0.23, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:115854 original size:16 final size:16
Alignment explanation
Indices: 115833--115865 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
115823 CCAACGTTTA
115833 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
115849 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
115865 T
1 T
115866 TAATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:120190 original size:3 final size:3
Alignment explanation
Indices: 120182--120233 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
120172 TTTTTGTATA
** * *
120182 TAT TAT TAT TAT CGT TAT T-T TAAT TAT TAT TAT TAG CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
120227 TAT TAT T
1 TAT TAT T
120234 TAACTTACAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:122607 original size:22 final size:22
Alignment explanation
Indices: 122582--122625 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
122572 TCAAACGATG
*
122582 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
122604 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
122626 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:124158 original size:31 final size:32
Alignment explanation
Indices: 124122--124183 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
124112 ATTTTACATG
124122 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
124153 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
124184 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:125201 original size:22 final size:23
Alignment explanation
Indices: 125158--125202 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
125148 AGTGCACCAT
*
125158 TTCCATCTAAGAAGCTCCAGACA
1 TTCCATCTAAGAAGCTCAAGACA
125181 TTCCA-CTAAGAA-CTGCAAGACA
1 TTCCATCTAAGAAGCT-CAAGACA
125203 CTAAAGCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 13 0.65
23 5 0.25
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.20
Consensus pattern (23 bp):
TTCCATCTAAGAAGCTCAAGACA
Found at i:126263 original size:24 final size:21
Alignment explanation
Indices: 126215--126269 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 21
126205 AAGATCAAAC
*
126215 CAAAGAAAAAAAAACAAAGAG
1 CAAAGAAAAAAAAACAAAAAG
*
126236 CAAAGAAAAAATCAAAGCAAAAAT
1 CAAAGAAAAAA--AAA-CAAAAAG
126260 CAAAGAAAAA
1 CAAAGAAAAA
126270 GCAAAGAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.38
23 3 0.10
24 15 0.52
ACGTcount: A:0.75, C:0.11, G:0.11, T:0.04
Consensus pattern (21 bp):
CAAAGAAAAAAAAACAAAAAG
Found at i:126268 original size:11 final size:12
Alignment explanation
Indices: 126236--126282 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
126226 AAACAAAGAG
126236 CAAAGAAAAAAT
1 CAAAGAAAAAAT
*
126248 CAAAGCAAAAAT
1 CAAAGAAAAAAT
*
126260 CAAAG-AAAAAG
1 CAAAGAAAAAAT
126271 CAAAGAACAAAA
1 CAAAGAA-AAAA
126283 GAGGACAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
11 10 0.32
12 17 0.55
13 4 0.13
ACGTcount: A:0.72, C:0.13, G:0.11, T:0.04
Consensus pattern (12 bp):
CAAAGAAAAAAT
Found at i:126282 original size:24 final size:25
Alignment explanation
Indices: 126227--126283 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
126217 AAGAAAAAAA
*
126227 AACAAAGAGCAAAGAAAAAATCAAAG
1 AACAAA-AGCAAAGAAAAAAGCAAAG
* *
126253 CA-AAAATCAAAG-AAAAAGCAAAG
1 AACAAAAGCAAAGAAAAAAGCAAAG
126276 AACAAAAG
1 AACAAAAG
126284 AGGACAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
23 11 0.44
24 10 0.40
25 3 0.12
26 1 0.04
ACGTcount: A:0.70, C:0.12, G:0.14, T:0.04
Consensus pattern (25 bp):
AACAAAAGCAAAGAAAAAAGCAAAG
Found at i:127459 original size:4 final size:4
Alignment explanation
Indices: 127450--127515 Score: 84
Period size: 4 Copynumber: 17.2 Consensus size: 4
127440 GATCGAGAAA
* * *
127450 ACAT ACAT ACAT ACAA ACAT ATAT ACAT ACAT ACAT ACAT ATAT AC--
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
127496 ACAT ACAT ACAT A-AT ACAT A
1 ACAT ACAT ACAT ACAT ACAT A
127516 AAATTTGCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 3 0.06
4 48 0.91
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:128178 original size:104 final size:104
Alignment explanation
Indices: 127966--128200 Score: 236
Period size: 104 Copynumber: 2.3 Consensus size: 104
127956 TGAGAATTTT
* * *
127966 AAAACAAATTGTGTTTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGATTTGATTCACTT
1 AAAACAAATTGTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGATTTGATTCACTT
* * ****
128031 AAAACAAAATTAATCTCACCTTAGATTGTTGTTTCTTTC
66 AAAACAAAATTAATCTCACCTTAGATCGTTGTCTCAAAA
* * *
128070 AAAACAAATT-TCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCAC
1 AAAACAAATTGT-GTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCG-ATTTGATTCAC
* *
128134 ATT-AAACAAAGTTGATCTCA-CTTGAGATCGTT-TCTCAAAA
64 -TTAAAACAAAATTAATCTCACCTT-AGATCGTTGTCTCAAAA
*
128174 AAAAC----T-TGTCTCGCTTGAGACAATTTC
1 AAAACAAATTGTGTCTCGCTTGAGACATTTTC
128201 TCTAAAAACA
Statistics
Matches: 111, Mismatches: 16, Indels: 13
0.79 0.11 0.09
Matches are distributed among these distances:
99 18 0.16
100 2 0.02
103 1 0.01
104 56 0.50
105 32 0.29
106 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (104 bp):
AAAACAAATTGTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGATTTGATTCACTT
AAAACAAAATTAATCTCACCTTAGATCGTTGTCTCAAAA
Found at i:128228 original size:36 final size:36
Alignment explanation
Indices: 128164--128265 Score: 106
Period size: 34 Copynumber: 3.0 Consensus size: 36
128154 CTTGAGATCG
*
128164 TTTCTC-AAAAA-AAA-CTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
** *
128197 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGACTA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
* * *
128233 TATCT-T-AAAGCAAATTTCGTCTCGCTTGAGACA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
128266 TTTTTCCTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
33 6 0.11
34 27 0.48
35 4 0.07
36 19 0.34
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (36 bp):
TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
Found at i:128647 original size:29 final size:28
Alignment explanation
Indices: 128609--128678 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
128599 GTTTCTCTTG
*
128609 AAAAATCTTTGAGTTTGTTCCTTTTGAA
1 AAAAATCTTTGAGTTCGTTCCTTTTGAA
* *
128637 TAAATATCTTTGAG-TCGTTTCTTTTGAA
1 -AAAAATCTTTGAGTTCGTTCCTTTTGAA
*
128665 AAAAAACTTTGAGT
1 AAAAATCTTTGAGT
128679 CTATTTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 11 0.31
28 12 0.34
29 12 0.34
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (28 bp):
AAAAATCTTTGAGTTCGTTCCTTTTGAA
Found at i:128780 original size:51 final size:54
Alignment explanation
Indices: 128688--128790 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 54
128678 TCTATTTATT
*
128688 TGAAACAAAGTTTTATCTCTCTTGAGACAATTTCGTG-AAAAATC-TTGAGTCC
1 TGAAACAAAGTTTTATATCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTCC
* *
128740 TGAAACAAAGTTTTGTATCTC-TGAGACAATTTTGTGAAAAAATCTTTGAGT
1 TGAAACAAAGTTTTATATCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGT
128791 TTGTTCTTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 14 0.30
52 26 0.57
53 6 0.13
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (54 bp):
TGAAACAAAGTTTTATATCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTCC
Found at i:128894 original size:67 final size:67
Alignment explanation
Indices: 128777--128972 Score: 224
Period size: 66 Copynumber: 3.0 Consensus size: 67
128767 AATTTTGTGA
* *
128777 AAAAATCTTTGAGTTTG-TTCTTTGGAAAC-AAATTCTT-TCTCTTTTAAGATAGTTTTCTTTTG
1 AAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATT-TTGTCTCTCTTAAGATAG-TTTCTTTTG
128839 AAAC
64 AAAC
*
128843 AAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCTCTT-AGATAATTTCTTTTGAA
1 AAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAGTTTCTTTTGAA
128907 AC
66 AC
* * * * * * **
128909 AAAAATCTTTGAATCTGTTTCTCTT-AAA-ATGAATTTTGTATCTCTTGAGACCGTTTCTTTTGA
1 AAAAATCTTTGAGTTTGTTTCTTTTGAAACA-AAATTTTGTCTCTCTTAAGATAGTTTCTTTTGA
128972 A
65 A
128973 GTAAATCTTT
Statistics
Matches: 114, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
64 1 0.01
65 17 0.15
66 66 0.58
67 18 0.16
68 12 0.11
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (67 bp):
AAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAGTTTCTTTTGAA
AC
Found at i:128930 original size:30 final size:30
Alignment explanation
Indices: 128830--128930 Score: 80
Period size: 30 Copynumber: 3.2 Consensus size: 30
128820 TTAAGATAGT
* *
128830 TTTCTTTTGAAACAAAAATCTTTGAGTTTG
1 TTTCTTTTGAAACAAAAATCTTTGAATCTG
**
128860 TTTCTTTTGAAAC-AAAAT-TTTGTCTCTCTTAG
1 TTTCTTTTGAAACAAAAATCTTTG--AATC-T-G
128892 ATAATTTCTTTTGAAACAAAAATCTTTGAATCTG
1 ----TTTCTTTTGAAACAAAAATCTTTGAATCTG
128926 TTTCT
1 TTTCT
128931 CTTAAAATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
28 4 0.07
29 5 0.09
30 19 0.34
31 1 0.02
32 1 0.02
34 1 0.02
35 1 0.02
36 15 0.27
37 5 0.09
38 4 0.07
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.48
Consensus pattern (30 bp):
TTTCTTTTGAAACAAAAATCTTTGAATCTG
Found at i:128966 original size:66 final size:66
Alignment explanation
Indices: 128740--128972 Score: 182
Period size: 66 Copynumber: 3.6 Consensus size: 66
128730 TCTTGAGTCC
* * * * *
128740 TGAAACAAAGTTTTGTATCTCTGAGACAA-TT-TTGTG--A-AAAAATCTTTGAGTTTG-TTCT-
1 TGAAACAAAATTTTGTATCTCTTAGACAATTTCTTTTGAAACAAAAATCTTTGAATCTGTTTCTC
128798 T
66 T
* * * * * *
128799 TGGAAAC-AAATTCTT-TCTCTTTTAAGATAGTTTTCTTTTGAAACAAAAATCTTTGAGTTTGTT
1 T-GAAACAAAATT-TTGTATCTCTT-AGACA-ATTTCTTTTGAAACAAAAATCTTTGAATCTGTT
*
128862 TCTTT
62 TCTCT
* *
128867 TGAAACAAAATTTTGTCTCTCTTAGATAATTTCTTTTGAAACAAAAATCTTTGAATCTGTTTCTC
1 TGAAACAAAATTTTGTATCTCTTAGACAATTTCTTTTGAAACAAAAATCTTTGAATCTGTTTCTC
128932 T
66 T
* **
128933 T-AAA-ATGAATTTTGTATCTCTTGAGACCGTTTCTTTTGAA
1 TGAAACA-AAATTTTGTATCTCTT-AGACAATTTCTTTTGAA
128973 GTAAATCTTT
Statistics
Matches: 142, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
59 10 0.07
60 11 0.08
62 2 0.01
63 4 0.03
64 1 0.01
65 18 0.13
66 66 0.46
67 16 0.11
68 14 0.10
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (66 bp):
TGAAACAAAATTTTGTATCTCTTAGACAATTTCTTTTGAAACAAAAATCTTTGAATCTGTTTCTC
T
Done.