Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 4 of 216
Found at i:1269113 original size:101 final size:101
Alignment explanation
Indices: 1268987--1269202 Score: 391
Period size: 101 Copynumber: 2.2 Consensus size: 101
1268977 TATTCTATTG
*
1268987 AGAA-ATTTAA-ACAACATAGATTATAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 AGAATATTTAATACTACATAGATTATAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1269050 TAGTATTATATATTATGATTTTAGTAAATTCATATA
66 TAGTATTATATATTATGATTTTAGTAAATTCATATA
* *
1269086 ATAATATTTAATACTACATAGATTATAAATTATATTTAATAATTATTATTTTAAATTATATTTTA
1 AGAATATTTAATACTACATAGATTATAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1269151 TAGTATTATATATTATGATTTTAGTAAATTCATATA
66 TAGTATTATATATTATGATTTTAGTAAATTCATATA
1269187 AGAATATTTAATACTA
1 AGAATATTTAATACTA
1269203 AGAATTTTAT
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
99 3 0.03
100 6 0.05
101 102 0.92
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (101 bp):
AGAATATTTAATACTACATAGATTATAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
TAGTATTATATATTATGATTTTAGTAAATTCATATA
Found at i:1269146 original size:26 final size:26
Alignment explanation
Indices: 1269006--1269166 Score: 95
Period size: 26 Copynumber: 6.2 Consensus size: 26
1268996 AACAACATAG
*
1269006 ATTATAAATTATATTTAATAATAATT
1 ATTATAAATTATATTTAATAATTATT
* *
1269032 ATTTTAAATTATATTT--T-A-TAGT
1 ATTATAAATTATATTTAATAATTATT
* *
1269054 ATTATATATTATGATTTTAGTAA--ATT
1 ATTATAAATTAT-A-TTTAATAATTATT
* * * *
1269080 CA-TAT-AATAATATTTAATACTACATAG
1 -ATTATAAATTATATTTAATAAT-TAT-T
1269107 ATTATAAATTATATTTAATAATTATT
1 ATTATAAATTATATTTAATAATTATT
* *
1269133 ATTTTAAATTATATTTTATAGTATTATAT
1 ATTATAAATTATATTTAATA--ATTAT-T
1269162 ATTAT
1 ATTAT
1269167 GATTTTAGTA
Statistics
Matches: 102, Mismatches: 18, Indels: 27
0.69 0.12 0.18
Matches are distributed among these distances:
22 12 0.12
23 8 0.08
24 5 0.05
25 4 0.04
26 42 0.41
27 7 0.07
28 19 0.19
29 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
ATTATAAATTATATTTAATAATTATT
Found at i:1269311 original size:18 final size:17
Alignment explanation
Indices: 1269288--1269339 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
1269278 ACATATTATG
1269288 ATTTTAGTAAATTCATAT
1 ATTTTAGTAAATT-ATAT
*
1269306 ATTTTATTAAATTATAT
1 ATTTTAGTAAATTATAT
*
1269323 ATTTTTATTAAATTATA
1 A-TTTTAGTAAATTATA
1269340 ATAATTATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 5 0.16
18 27 0.84
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTTAGTAAATTATAT
Found at i:1269589 original size:16 final size:15
Alignment explanation
Indices: 1269568--1269620 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
1269558 ATATTTACCT
1269568 ATTACGTCTCTATTTC
1 ATTACG-CTCTATTTC
*
1269584 ATTACGCATTTATTTC
1 ATTACGC-TCTATTTC
* *
1269600 ATTACACCTCTATTCC
1 ATTAC-GCTCTATTTC
1269616 ATTAC
1 ATTAC
1269621 AGCGAACCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 1 0.03
16 29 0.94
17 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.04, T:0.45
Consensus pattern (15 bp):
ATTACGCTCTATTTC
Found at i:1269621 original size:16 final size:16
Alignment explanation
Indices: 1269575--1269621 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
1269565 CCTATTACGT
*
1269575 CTCTATTTCATTACGC
1 CTCTATTTCATTACAC
* *
1269591 ATTTATTTCATTACAC
1 CTCTATTTCATTACAC
*
1269607 CTCTATTCCATTACA
1 CTCTATTTCATTACA
1269622 GCGAACCAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.45
Consensus pattern (16 bp):
CTCTATTTCATTACAC
Found at i:1272374 original size:20 final size:21
Alignment explanation
Indices: 1272344--1272383 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1272334 TAATCATTAC
1272344 AAAAATATACAAAAAAATTTT
1 AAAAATATACAAAAAAATTTT
1272365 AAAAAT-TACAAAAAAATTT
1 AAAAATATACAAAAAAATTT
1272384 ATTGAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAATATACAAAAAAATTTT
Found at i:1272538 original size:21 final size:20
Alignment explanation
Indices: 1272504--1272547 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1272494 TTGCAAAAAG
* *
1272504 AAAATGTTTTAAAAAATATGA
1 AAAATATTTAAAAAAATA-GA
*
1272525 AAAATATTTAAAAATATAGA
1 AAAATATTTAAAAAAATAGA
1272545 AAA
1 AAA
1272548 TAATAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATATTTAAAAAAATAGA
Found at i:1272594 original size:21 final size:21
Alignment explanation
Indices: 1272570--1272615 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1272560 ATAAGTTAAT
1272570 AAAAA-TATAAAATATTATAAA
1 AAAAAGTATAAAA-ATTATAAA
*
1272591 AAAAAGTATAAAAGTTATAAA
1 AAAAAGTATAAAAATTATAAA
1272612 AAAA
1 AAAA
1272616 TTTAAAAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAAAGTATAAAAATTATAAA
Found at i:1272621 original size:19 final size:19
Alignment explanation
Indices: 1272570--1272623 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
1272560 ATAAGTTAAT
*
1272570 AAAAATATAAAATATTATAAA
1 AAAAATATAAAA-GTTAT-AA
1272591 AAAAAGTATAAAAGTTATAA
1 AAAAA-TATAAAAGTTATAA
*
1272611 AAAAATTTAAAAG
1 AAAAATATAAAAG
1272624 GATAAGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 7 0.23
20 7 0.23
21 9 0.30
22 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (19 bp):
AAAAATATAAAAGTTATAA
Found at i:1273764 original size:19 final size:19
Alignment explanation
Indices: 1273689--1273766 Score: 51
Period size: 19 Copynumber: 4.3 Consensus size: 19
1273679 TTAATACAAT
*
1273689 TAACAATTAATAATTTGA-
1 TAACAATTAATAATTTTAC
* *
1273707 TATA-ATTTGATAATTTTAC
1 TA-ACAATTAATAATTTTAC
* *
1273726 TAATAATTAATACA----AT
1 TAACAATTAATA-ATTTTAC
1273742 TAACAATTAATAATTTTAC
1 TAACAATTAATAATTTTAC
1273761 TAACAA
1 TAACAA
1273767 AATGTTAGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 15
0.66 0.12 0.22
Matches are distributed among these distances:
15 1 0.02
16 12 0.27
18 14 0.32
19 16 0.36
20 1 0.02
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (19 bp):
TAACAATTAATAATTTTAC
Found at i:1273784 original size:86 final size:85
Alignment explanation
Indices: 1273689--1273860 Score: 235
Period size: 86 Copynumber: 2.0 Consensus size: 85
1273679 TTAATACAAT
*
1273689 TAACAATTAATAATTTGATATAATTTG-ATAATTTTACTAATAATTAAT-ACAATT-A-ACAATT
1 TAACAATTAATAA-TT-A-ATAATTTGAATAATTTGA-TAAT-ATTAATAACAATTAATACAATT
1273750 AATAATTTTACTAACAAAATGTTAG
61 AATAATTTTACTAACAAAATGTTAG
* *
1273775 TAACAATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAATA
1 TAACAATTAATAATTAATAATTTGA-ATAATTTGATAATATTAATAACAATTAATACAATTAATA
1273840 ATTTTACTAACAAAATGTTAG
65 ATTTTACTAACAAAATGTTAG
1273861 ATTTTACAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
83 12 0.15
84 11 0.14
85 11 0.14
86 44 0.56
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (85 bp):
TAACAATTAATAATTAATAATTTGAATAATTTGATAATATTAATAACAATTAATACAATTAATAA
TTTTACTAACAAAATGTTAG
Found at i:1273885 original size:17 final size:17
Alignment explanation
Indices: 1273849--1273888 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1273839 AATTTTACTA
*
1273849 ACAAAATGTTAGATTTT
1 ACAAAATGTTAGATTGT
1273866 ACAAAATGTT-GATTGGT
1 ACAAAATGTTAGATT-GT
1273883 ACAAAA
1 ACAAAA
1273889 AATATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (17 bp):
ACAAAATGTTAGATTGT
Found at i:1273925 original size:16 final size:16
Alignment explanation
Indices: 1273906--1273962 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
1273896 AATTTGATAC
*
1273906 AATTTTAATAATAATT
1 AATTTTAATAACAATT
*
1273922 AATTTTGATAACAATT
1 AATTTTAATAACAATT
*
1273938 AATTTTAATAACATTT
1 AATTTTAATAACAATT
*
1273954 AGTTTTAAT
1 AATTTTAAT
1273963 TTTAATAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:1273986 original size:23 final size:23
Alignment explanation
Indices: 1273936--1273997 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
1273926 TTGATAACAA
* * *
1273936 TTAATTTTAAT-AACATTTAGTT
1 TTAATTTTAATAAAAATATAATT
1273958 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
1273981 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
1273998 AGGGTCGGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 11 0.31
23 18 0.51
24 6 0.17
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:1275441 original size:45 final size:46
Alignment explanation
Indices: 1275374--1275521 Score: 221
Period size: 46 Copynumber: 3.3 Consensus size: 46
1275364 TACGTAAGAT
*
1275374 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * * *
1275417 CACCTATCACTTTGTCACTTGATCAAATAAGTGTAGCTAAAGTTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1275463 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
1275509 TACTTATCACTTT
1 CACTTATCACTTT
1275522 ATCAACACTT
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
43 9 0.10
44 5 0.05
45 20 0.22
46 58 0.63
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:1275560 original size:62 final size:64
Alignment explanation
Indices: 1275461--1275583 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 64
1275451 AGCTAAAGTT
*
1275461 AACACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACTACTTATCACTTTATC
1 AACACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATC
*
1275525 AACACTTATCAC-TTGTTC-C-TGATCAGATAAGTGTAGCTAAAGCTACCATTTATCACTTT
1 AACACTTATCACTTTG-TCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1275584 GTCACTTGAT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
62 38 0.68
63 4 0.07
64 14 0.25
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (64 bp):
AACACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATC
Found at i:1284663 original size:32 final size:32
Alignment explanation
Indices: 1284619--1284683 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
1284609 TAATAAGGTA
1284619 AGATTTCGATCCTTAATTATAAGGATTCCAAC
1 AGATTTCGATCCTTAATTATAAGGATTCCAAC
* *
1284651 AGATTTCTATCCTTAATTATAGGGATTCCAAC
1 AGATTTCGATCCTTAATTATAAGGATTCCAAC
1284683 A
1 A
1284684 ATGGAAGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
AGATTTCGATCCTTAATTATAAGGATTCCAAC
Found at i:1292878 original size:4 final size:4
Alignment explanation
Indices: 1292869--1292918 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
1292859 GAGCATGTTC
* * * *
1292869 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATGT ATGT ATTT ATAT GTAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1292917 AT
1 AT
1292919 TTTAGGAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (4 bp):
ATAT
Found at i:1292878 original size:6 final size:6
Alignment explanation
Indices: 1292869--1292918 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
1292859 GAGCATGTTC
* * * *
1292869 ATATAT ATATAT ATATAT ATATAT ATATAT GTATGT ATTTAT ATGTAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
1292917 AT
1 AT
1292919 TTTAGGAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (6 bp):
ATATAT
Found at i:1292884 original size:10 final size:10
Alignment explanation
Indices: 1292869--1292918 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
1292859 GAGCATGTTC
1292869 ATATATATAT
1 ATATATATAT
1292879 ATATATATAT
1 ATATATATAT
1292889 ATATATATAT
1 ATATATATAT
* * *
1292899 GTATGTATTT
1 ATATATATAT
*
1292909 ATATGTATAT
1 ATATATATAT
1292919 TTTAGGAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (10 bp):
ATATATATAT
Found at i:1297463 original size:120 final size:120
Alignment explanation
Indices: 1297297--1297764 Score: 893
Period size: 120 Copynumber: 3.9 Consensus size: 120
1297287 ACTAGCATCA
*
1297297 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAACATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1297362 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
1297417 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1297482 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
1297537 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1297602 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
* *
1297657 ACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1297722 AATTATATA-TTGTAATTAAAATATATTTAATAATAATTATGTT
66 AATTATATAGTT-TAATTAAAATATATTTAATAATAATTATGTT
1297765 TAAATATGAT
Statistics
Matches: 344, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
119 2 0.01
120 342 0.99
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (120 bp):
ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
Found at i:1297961 original size:44 final size:45
Alignment explanation
Indices: 1297912--1298002 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
1297902 ACCTCTATTC
* * *
1297912 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
1297956 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
1298001 CA
1 CA
1298003 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:1298004 original size:16 final size:16
Alignment explanation
Indices: 1297983--1298051 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
1297973 GATTAGCTAT
1297983 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
1297999 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
1298016 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
*
1298032 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
1298048 TACA
1 TACA
1298052 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 33 0.69
17 15 0.31
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:1298028 original size:33 final size:32
Alignment explanation
Indices: 1297983--1298051 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
1297973 GATTAGCTAT
1297983 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
* *
1298016 TACACCTTTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
1298048 TACA
1 TACA
1298052 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:1300022 original size:35 final size:35
Alignment explanation
Indices: 1299954--1300022 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
1299944 AGCTGAAAAC
*
1299954 TATAAAAAATACATTTATAATAAATTTTGCTATTT
1 TATAAAAAATAAATTTATAATAAATTTTGCTATTT
*
1299989 TATAGAAAAATGAAATTT-TAAT-AATTTTTCTATT
1 TATA-AAAAAT-AAATTTATAATAAATTTTGCTATT
1300023 AATTCAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 15 0.50
36 10 0.33
37 5 0.17
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (35 bp):
TATAAAAAATAAATTTATAATAAATTTTGCTATTT
Found at i:1306261 original size:17 final size:18
Alignment explanation
Indices: 1306239--1306273 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
1306229 TCGAACGGCG
1306239 GAAAAGAAG-AAGGGAAA
1 GAAAAGAAGAAAGGGAAA
1306256 GAAAAGAAGAAAGGGAAA
1 GAAAAGAAGAAAGGGAAA
1306274 ATTAGGGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (18 bp):
GAAAAGAAGAAAGGGAAA
Found at i:1309831 original size:36 final size:36
Alignment explanation
Indices: 1309784--1309858 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
1309774 GGTACCGTTG
1309784 TTTAAATTGGTATGATTATTCGATTCAATCAGTTTT
1 TTTAAATTGGTATGATTATTCGATTCAATCAGTTTT
1309820 TTTAAATTGGTATGATTATTCGATTCAATCAGTTTT
1 TTTAAATTGGTATGATTATTCGATTCAATCAGTTTT
1309856 TTT
1 TTT
1309859 CGATTAAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (36 bp):
TTTAAATTGGTATGATTATTCGATTCAATCAGTTTT
Found at i:1310954 original size:30 final size:32
Alignment explanation
Indices: 1310911--1310987 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 32
1310901 TTTATAATTG
*
1310911 TTAAAATATAA-TTTTACTAATTTTTAAAGGA
1 TTAAAATATAATTTTTACTAATTTTTAAAAGA
* * *
1310942 TTAAATTA-AATTTTTATTATTTTTTAAAAGA
1 TTAAAATATAATTTTTACTAATTTTTAAAAGA
* *
1310973 TTAAAGTGTAATTTT
1 TTAAAATATAATTTT
1310988 ATCATTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 2 0.05
31 30 0.79
32 6 0.16
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (32 bp):
TTAAAATATAATTTTTACTAATTTTTAAAAGA
Found at i:1311468 original size:23 final size:23
Alignment explanation
Indices: 1311442--1311488 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1311432 TATAAGATAG
1311442 TCACTAAACTAATCGAATTTGTC
1 TCACTAAACTAATCGAATTTGTC
1311465 TCACTAAACTAATCGAATTTGTC
1 TCACTAAACTAATCGAATTTGTC
1311488 T
1 T
1311489 TTGTTGATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (23 bp):
TCACTAAACTAATCGAATTTGTC
Found at i:1311956 original size:161 final size:163
Alignment explanation
Indices: 1311661--1311963 Score: 450
Period size: 161 Copynumber: 1.9 Consensus size: 163
1311651 TTCTTTTTTC
* * *
1311661 TTTTCTTTGCGACATTTCACCTAAAACGCTAAAAAAATAAATTTATTAGTTAAGTTTGATAAAAA
1 TTTTCTTTGCGACATTTCACCTAAAAAGCTAAAAAAATAAATTTATCAGATAAGTTTGATAAAAA
* * *
1311726 AAATAGAAAAAATAAGAACACCACAAAGATCTAAAATAATACTTTTCATCTTTTCTCATTCTTTT
66 AAATACAAAAAATAAGAACACCACAAAGATCCAAAATAATACTTTTCATCTTTTCTCATTATTTT
1311791 AAAATTAACCCTTAATGTCACGAGAAAAGCAAT
131 AAAATTAACCCTTAATGTCACGAGAAAAGCAAT
* * *
1311824 TTTTCTTTGTGACATTTTACCTAAAAAGCTACAAAAATAAATTTATCAGATATA-TTTGAT-AAA
1 TTTTCTTTGCGACATTTCACCTAAAAAGCTAAAAAAATAAATTTATCAGATA-AGTTTGATAAAA
* * * * *
1311887 AAAA-CCAAGAAATAGGAACACCAGAAAGATCCAAAATAATATTTTTCATCTTTTCTCATTATTT
65 AAAATACAAAAAATAAGAACACCACAAAGATCCAAAATAATACTTTTCATCTTTTCTCATTATTT
1311951 TAAAATTAACCCT
130 TAAAATTAACCCT
1311964 CAATAGCACA
Statistics
Matches: 125, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
161 65 0.52
162 7 0.06
163 52 0.42
164 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.34
Consensus pattern (163 bp):
TTTTCTTTGCGACATTTCACCTAAAAAGCTAAAAAAATAAATTTATCAGATAAGTTTGATAAAAA
AAATACAAAAAATAAGAACACCACAAAGATCCAAAATAATACTTTTCATCTTTTCTCATTATTTT
AAAATTAACCCTTAATGTCACGAGAAAAGCAAT
Found at i:1313984 original size:298 final size:296
Alignment explanation
Indices: 1313526--1314276 Score: 863
Period size: 297 Copynumber: 2.5 Consensus size: 296
1313516 GAGTATTTTT
* *
1313526 ACGGTAGTGATTGG-AAAGAAGAAGGTTCTGGAAGTTTTTGGTCAAACAGTTTGACTGTAGTGTA
1 ACGGTAGTGATAGGAAAAGAAGAA---TCTGGAA-ATTTTGGTCAAACAGTTTGACTGTAGT-TA
* *
1313590 TTGTGCTTTTAATTATCGTTTTCAATGATGGATCCTGTGTATTTCAATGATTGGAATTGATTTAT
61 TTGTGCTTGTAATTATCGTTTTC-ATGATGGATCCTGTGTATTTCAATGATTTGAATTGATTTAT
* *
1313655 TTTGAGTGAAGTGTGATTGCTTATG-AAAATGATATTCAATTTTT-ATTTTTTGTTTTCTGGAAT
125 TTTGAGTAAAGTGTGATTGCTTATGAAAAATGATATTCAATTTTTCATTTTTTG-TTTCTAGAAT
* * * ** * * *
1313718 GCTTTTGGATTTAATTTGTTCTTTGCAGAGTAGCCAAA-AAGTTTCT-GTTCCATTCTTTTAGGA
189 ACTTTTGGA-TTAATTTGTTCTTAGCAAACCAG-CAAAGAAATTTATAGTTCC-TTCTTTTAGAA
** *
1313781 TTTAGT-AACGAAAAATTTGTAGCTAAACCAAACATAAAGGATTTTTG
251 TTTAGTGAA-GAAAAATTTGTAGCTAAACCAAACATAAAGG-GGTTTA
* * *
1313828 A-GGTATTGATAGGAAAATAAGAATCTGGAAATTTTGGTCAAATAGTTTGACTGTAGCTTATTGT
1 ACGGTAGTGATAGGAAAAGAAGAATCTGGAAATTTTGGTCAAACAGTTTGACTGTAG-TTATTGT
* * * *
1313892 GCTTGTATTTATCGTTTTCATTGAT-GATCCCGTGTATTTCAATGATTTGTATTTATTTATTTTG
65 GCTTGTAATTATCGTTTTCA-TGATGGATCCTGTGTATTTCAATGATTTGAATTGATTTATTTTG
* * *
1313956 AGTAAAGTGTGATTGCTTATGAAAAATGATATTCGATTTTTCATTTTTTGTTTCTAGAGTATTTT
129 AGTAAAGTGTGATTGCTTATGAAAAATGATATTCAATTTTTCATTTTTTGTTTCTAGAATACTTT
* * *
1314021 TGGATTAATTTGTTCTTAGCAAACCAGTAAAGAAATTTATATTTTCTTCTTTTAGAATTTAGTGA
194 TGGATTAATTTGTTCTTAGCAAACCAGCAAAGAAATTTATAGTTCCTTCTTTTAGAATTTAGTGA
* * ** *
1314086 AGGAACATTTGTAGCTAAATTAAACATAGAGGGGTTTA
259 AGAAAAATTTGTAGCTAAACCAAACATAAAGGGGTTTA
* * * * * * *
1314124 ACTGTAGTGATAGGAAAAGAAGATTCTGGAAGTTTTGGTCAAACAGTTTGACTGGA-TCATTATA
1 ACGGTAGTGATAGGAAAAGAAGAATCTGGAAATTTTGGTCAAACAGTTTGACTGTAGTTATTGTG
* *** * *
1314188 CTTGTAGTTATCACGTTCGATGATGGATCCTGTATATTTGAATGATTTGAATTGATTTATTTTGA
66 CTTGTAATTATCGTTTTC-ATGATGGATCCTGTGTATTTCAATGATTTGAATTGATTTATTTTGA
*
1314253 GTAAAGTGTGATTACTTATGAAAA
130 GTAAAGTGTGATTGCTTATGAAAA
1314277 GATTTTTGAT
Statistics
Matches: 383, Mismatches: 55, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
295 23 0.06
296 66 0.17
297 170 0.44
298 89 0.23
299 16 0.04
301 10 0.03
302 9 0.02
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (296 bp):
ACGGTAGTGATAGGAAAAGAAGAATCTGGAAATTTTGGTCAAACAGTTTGACTGTAGTTATTGTG
CTTGTAATTATCGTTTTCATGATGGATCCTGTGTATTTCAATGATTTGAATTGATTTATTTTGAG
TAAAGTGTGATTGCTTATGAAAAATGATATTCAATTTTTCATTTTTTGTTTCTAGAATACTTTTG
GATTAATTTGTTCTTAGCAAACCAGCAAAGAAATTTATAGTTCCTTCTTTTAGAATTTAGTGAAG
AAAAATTTGTAGCTAAACCAAACATAAAGGGGTTTA
Found at i:1322479 original size:31 final size:31
Alignment explanation
Indices: 1322444--1322505 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
1322434 AATAACAATC
* * *
1322444 TAGTAACTTAAATGAAAATTTTTATATAGTT
1 TAGTAACTCAAATGAAAATTTATAAATAGTT
1322475 TAGTAACTCAAATGAAAATTTATAAATAGTT
1 TAGTAACTCAAATGAAAATTTATAAATAGTT
1322506 CAGTGATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (31 bp):
TAGTAACTCAAATGAAAATTTATAAATAGTT
Found at i:1330508 original size:15 final size:15
Alignment explanation
Indices: 1330488--1330523 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1330478 TCTCATGAAT
1330488 TCAAAAAAATAAAAA
1 TCAAAAAAATAAAAA
* *
1330503 TCAAAAAAATCAAAG
1 TCAAAAAAATAAAAA
1330518 TCAAAA
1 TCAAAA
1330524 TAGGAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.72, C:0.11, G:0.03, T:0.14
Consensus pattern (15 bp):
TCAAAAAAATAAAAA
Found at i:1332795 original size:88 final size:88
Alignment explanation
Indices: 1332646--1333428 Score: 1297
Period size: 88 Copynumber: 8.9 Consensus size: 88
1332636 CAATGAAGTT
* * *
1332646 AAAGATCTTGCCTTCCTGCATTGACAGTGAAACAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1332711 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
1332734 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1332799 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
1332822 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATTGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1332887 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
1332910 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1332975 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
1332998 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1333063 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
1333086 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATTGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
1333151 TGTGACGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
1333174 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
1333239 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * * *
1333262 AAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
1333327 TGT-AGTGGAGCTGGTTAAAGA-A
66 TGTGA-TGGAGCTGGTTGAAGACA
** * * * * * **
1333349 GCAGATCTTACCTTCCTGCATTAACAGCAAAGCAGATC-AA-AAACAAAGCCTTGCCTCCATCGG
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
*
1333412 TTG-CATTGGAGCTGGTT
65 TTGTGA-TGGAGCTGGTT
1333429 AAAGGTTACA
Statistics
Matches: 663, Mismatches: 29, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
85 6 0.01
86 30 0.05
87 33 0.05
88 594 0.90
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:1334162 original size:17 final size:16
Alignment explanation
Indices: 1334140--1334174 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1334130 GGTATATTTA
*
1334140 TTTTCTTTTTAGTTTTT
1 TTTTCTCTTTA-TTTTT
1334157 TTTTCTCTTTATTTTT
1 TTTTCTCTTTATTTTT
1334173 TT
1 TT
1334175 CCTTTCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.06, C:0.09, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTCTCTTTATTTTT
Found at i:1338903 original size:39 final size:39
Alignment explanation
Indices: 1338859--1338933 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
1338849 TCCAAACAAA
1338859 GGGTTGAACCGATTGAATCAAAAACTGCTTGAAACCTTT
1 GGGTTGAACCGATTGAATCAAAAACTGCTTGAAACCTTT
1338898 GGGTTGAACCGATTGAATCAAAAACTGCTTGAAACC
1 GGGTTGAACCGATTGAATCAAAAACTGCTTGAAACC
1338934 AGTAAAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (39 bp):
GGGTTGAACCGATTGAATCAAAAACTGCTTGAAACCTTT
Found at i:1343197 original size:15 final size:15
Alignment explanation
Indices: 1343177--1343207 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1343167 CGCCAAACAG
1343177 CTTTTTTATTCACAA
1 CTTTTTTATTCACAA
1343192 CTTTTTTATTCACAA
1 CTTTTTTATTCACAA
1343207 C
1 C
1343208 GCCCATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (15 bp):
CTTTTTTATTCACAA
Found at i:1344797 original size:24 final size:24
Alignment explanation
Indices: 1344765--1344812 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1344755 AGGGAAAGTA
1344765 TGTTTCATATTGCTTCACTCTGAT
1 TGTTTCATATTGCTTCACTCTGAT
1344789 TGTTTCATATTGCTTCACTCTGAT
1 TGTTTCATATTGCTTCACTCTGAT
1344813 AAAACTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.21, G:0.12, T:0.50
Consensus pattern (24 bp):
TGTTTCATATTGCTTCACTCTGAT
Found at i:1345868 original size:34 final size:34
Alignment explanation
Indices: 1345825--1345894 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
1345815 ACTAACATGA
1345825 TTGTGACATGTAATATATTTAATTGTGTTACATT
1 TTGTGACATGTAATATATTTAATTGTGTTACATT
1345859 TTGTGACATGTAATATATTTAATTGTGTTACATT
1 TTGTGACATGTAATATATTTAATTGTGTTACATT
1345893 TT
1 TT
1345895 TTGTTCATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (34 bp):
TTGTGACATGTAATATATTTAATTGTGTTACATT
Found at i:1353979 original size:21 final size:21
Alignment explanation
Indices: 1353955--1354001 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
1353945 ATCAGAATTT
1353955 AAATTTTATAAAGGGATATAA
1 AAATTTTATAAAGGGATATAA
1353976 AAATTTTATAAAGGGATATAA
1 AAATTTTATAAAGGGATATAA
1353997 AAATT
1 AAATT
1354002 AAGGAATGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (21 bp):
AAATTTTATAAAGGGATATAA
Found at i:1355005 original size:13 final size:13
Alignment explanation
Indices: 1354987--1355011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1354977 CTAAAGCCCT
1354987 TATAAACTAGAAG
1 TATAAACTAGAAG
1355000 TATAAACTAGAA
1 TATAAACTAGAA
1355012 ACCTTCCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (13 bp):
TATAAACTAGAAG
Found at i:1364005 original size:55 final size:58
Alignment explanation
Indices: 1363930--1364106 Score: 209
Period size: 59 Copynumber: 3.1 Consensus size: 58
1363920 ATCATCTAAC
* * * *
1363930 TATTAGTAAATTATTTTTTGGTCACCCAATTATGAAAAGTTACAAGATGGTTACCCAAT
1 TATTAGT-AATTCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGGTCACCCAAT
* * * *
1363989 TATTAGT-A-T-TTTTTTGGTCACCCAACCATGAAAAGCTACAAAATGATCA-CTAAT
1 TATTAGTAATTCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGGTCACCCAAT
* *
1364043 TATTAGTAAATTTCTTTTTTGGTCACCTAACTATGAAAAGTTACAAAATGGTCACTCAAT
1 TATTAGT-AA-TTCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGGTCACCCAAT
1364103 TATT
1 TATT
1364107 CAATTATTTC
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
54 11 0.11
55 34 0.34
56 2 0.02
57 1 0.01
58 1 0.01
59 43 0.43
60 7 0.07
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (58 bp):
TATTAGTAATTCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGGTCACCCAAT
Found at i:1365363 original size:25 final size:27
Alignment explanation
Indices: 1365335--1365384 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1365325 AGACTCAAAT
1365335 TTTGGAAATTT-T-AGAA-GAAAATAAG
1 TTTGG-AATTTATAAGAAGGAAAATAAG
1365360 TTTGGAATTTATAAGAAGGAAAATA
1 TTTGGAATTTATAAGAAGGAAAATA
1365385 TTTGAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.23
25 6 0.27
26 4 0.18
27 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (27 bp):
TTTGGAATTTATAAGAAGGAAAATAAG
Found at i:1365388 original size:25 final size:23
Alignment explanation
Indices: 1365331--1365388 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 23
1365321 CCAGAGACTC
1365331 AAAT-TTTGGAAATTTTAGAAGA
1 AAATATTTGGAAATTTTAGAAGA
1365353 AAATAAGTTTGG-AATTTATAAGAAGGA
1 AAAT-A-TTTGGAAATTT-T-AGAA-GA
1365380 AAATATTTG
1 AAATATTTG
1365389 AATAAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
22 4 0.13
24 5 0.17
25 10 0.33
26 5 0.17
27 6 0.20
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (23 bp):
AAATATTTGGAAATTTTAGAAGA
Found at i:1368736 original size:6 final size:6
Alignment explanation
Indices: 1368725--1368753 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1368715 GGAACTCGTC
1368725 GGGGTT GGGGTT GGGGTT GGGGTT GGGGT
1 GGGGTT GGGGTT GGGGTT GGGGTT GGGGT
1368754 CGGAATAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (6 bp):
GGGGTT
Found at i:1371787 original size:17 final size:17
Alignment explanation
Indices: 1371765--1371800 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1371755 TTTACGATAG
1371765 TAAAAATATAATTTTGT
1 TAAAAATATAATTTTGT
1371782 TAAAAATATAATTTTGT
1 TAAAAATATAATTTTGT
1371799 TA
1 TA
1371801 TTTTAATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
TAAAAATATAATTTTGT
Found at i:1375863 original size:60 final size:60
Alignment explanation
Indices: 1375770--1376340 Score: 586
Period size: 60 Copynumber: 9.6 Consensus size: 60
1375760 CTCAAGGTAA
* ** * *
1375770 TAATTTGTCGTTAGCTTAAA-TCCCAGCATTAAGCCTTTTGTATTGAGTTCCATGTGATGT
1 TAATTTGTTGTTAGCTTAAAGT-CCAGCATTAAGCCTTTTGTAACGTGTTCCACGTGATGT
* * * *
1375830 TAATTTGTTGTTAGCTTAAA-TACCAGCATTAAGCCTTTCGCAACGAGTTCCATGTGATGT
1 TAATTTGTTGTTAGCTTAAAGT-CCAGCATTAAGCCTTTTGTAACGTGTTCCACGTGATGT
* * * * * * *
1375890 TAATTTGTTGTTAGCTTAAA-TCCCTGCATTAA--ATGTTCGCAATGTGCTCCACGTGTTGT
1 TAATTTGTTGTTAGCTTAAAGT-CCAGCATTAAGCCT-TTTGTAACGTGTTCCACGTGATGT
* ** * * *
1375949 TAATTTCTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTCATGACATGTTCCACGTGATAT
1 TAATTTGTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTTGTAACGTGTTCCACGTGATGT
* * *
1376009 TAATTTGTTGTTAGCTTAAAGTCCAGCCTTAAGCCTTTTGTAACGTGCTCCACGTGAGGT
1 TAATTTGTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTTGTAACGTGTTCCACGTGATGT
** * *
1376069 TAATTTGCCGTTAGCTTAAAGTCCAGCCTTAAGCCTTTTGTAACGTGTTCCATGTGATGT
1 TAATTTGTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTTGTAACGTGTTCCACGTGATGT
* * *
1376129 TAATTTGCTGTTAGCTTAAAGTCCAGCCTTAAGCCTTTTGTAACTTGTTCCACGTGATGT
1 TAATTTGTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTTGTAACGTGTTCCACGTGATGT
* * * * * *
1376189 TAATTTGTTGTTTGCTTAAA-TCCCAGCATTAAACCTTTCTG--ATGTGCTCCGCGTG-TCAT
1 TAATTTGTTGTTAGCTTAAAGT-CCAGCATTAAGCCTTT-TGTAACGTGTTCCACGTGAT-GT
* * ** ** * *
1376248 TAGTTTGTTGTTAACTTAAAGTCTTGCATTAAGCCTTTCATAACGTGCTCCACATGATGT
1 TAATTTGTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTTGTAACGTGTTCCACGTGATGT
1376308 TAATTTGTTGTTAGCTTAAA-TCCTAGCATTAAG
1 TAATTTGTTGTTAGCTTAAAGTCC-AGCATTAAG
1376341 TCTTCTCCAA
Statistics
Matches: 432, Mismatches: 67, Indels: 24
0.83 0.13 0.05
Matches are distributed among these distances:
58 2 0.00
59 91 0.21
60 335 0.78
61 4 0.01
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (60 bp):
TAATTTGTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTTGTAACGTGTTCCACGTGATGT
Found at i:1375982 original size:119 final size:119
Alignment explanation
Indices: 1375818--1376340 Score: 479
Period size: 119 Copynumber: 4.4 Consensus size: 119
1375808 TGTATTGAGT
* * *
1375818 TCCATGTGATGTTAATTTGTTGTTAGCTTAAA-TACCAGCATTAAGCCTTTCGCAACGAGTTCCA
1 TCCACGTGATGTTAATTTCTTGTTAGCTTAAAGT-CCAGCATTAAGCCTTTCGTAACGAGTTCCA
* *
1375882 TGTGATGTTAATTTGTTGTTAGCTTAAA-TCCCTGCATTAA-ATGTTCGCAATGTGC
65 TGTGATGTTAATTTGTTGTTAGCTTAAAGT-CCAGCATTAACAT-TTCGCAACGTGC
* * *
1375937 TCCACGTGTTGTTAATTTCTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTCATGAC-ATGTTCCA
1 TCCACGTGATGTTAATTTCTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTCGTAACGA-GTTCCA
* * * * * *
1376001 CGTGATATTAATTTGTTGTTAGCTTAAAGTCCAGCCTTAAGCCTTTTGTAACGTGC
65 TGTGATGTTAATTTGTTGTTAGCTTAAAGTCCAGCATTAA-CATTTCGCAACGTGC
* * * * *
1376057 TCCACGTGAGGTTAATTTGC-CGTTAGCTTAAAGTCCAGCCTTAAGCCTTTTGTAACGTGTTCCA
1 TCCACGTGATGTTAATTT-CTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTCGTAACGAGTTCCA
* * * * * * *
1376121 TGTGATGTTAATTTGCTGTTAGCTTAAAGTCCAGCCTTAAGCCTTTTGTAACTTGT
65 TGTGATGTTAATTTGTTGTTAGCTTAAAGTCCAGCATTAA-CATTTCGCAACGTGC
* * * * * * * *
1376177 TCCACGTGATGTTAATTTGTTGTTTGCTTAAA-TCCCAGCATTAAACCTTTC-TGATGTGCTCCG
1 TCCACGTGATGTTAATTTCTTGTTAGCTTAAAGT-CCAGCATTAAGCCTTTCGTAACGAGTTCCA
* * * * ** * **
1376240 CGTG-TCATTAGTTTGTTGTTAACTTAAAGTCTTGCATTAAGCCTTTCATAACGTGC
65 TGTGAT-GTTAATTTGTTGTTAGCTTAAAGTCCAGCATTAA-CATTTCGCAACGTGC
* *
1376296 TCCACATGATGTTAATTTGTTGTTAGCTTAAA-TCCTAGCATTAAG
1 TCCACGTGATGTTAATTTCTTGTTAGCTTAAAGTCC-AGCATTAAG
1376341 TCTTCTCCAA
Statistics
Matches: 340, Mismatches: 53, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
118 4 0.01
119 178 0.52
120 156 0.46
121 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (119 bp):
TCCACGTGATGTTAATTTCTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTCGTAACGAGTTCCAT
GTGATGTTAATTTGTTGTTAGCTTAAAGTCCAGCATTAACATTTCGCAACGTGC
Found at i:1376257 original size:239 final size:238
Alignment explanation
Indices: 1375770--1376340 Score: 679
Period size: 239 Copynumber: 2.4 Consensus size: 238
1375760 CTCAAGGTAA
* ** * * *
1375770 TAATTTGTCGTTAGCTTAAA-TCCCAGCATTAAGCCTTTTGTATTGAGTTCCATGTGATGTTAAT
1 TAATTTGTTGTTAGCTTAAAGT-CCAGCATTAAGCCTTTTGTAACGTGCTCCACGTGATGTTAAT
*
1375834 TTGTTGTTAGCTTAAATACCAGCATTAAGCCTTTCGCAACGAGTTCCATGTGATGTTAATTTGTT
65 TTGTTGTTAGCTTAAAT-CCAGCATTAAGCCTTTCGCAACGAGTTCCATGTGATGTTAATTTGCT
* *
1375899 GTTAGCTTAAATCCCTGCATTAAATGTTCGCAATGTGCTCCACGTGTTGTTAATTTCTTGTTAGC
129 GTTAGCTTAAATCCCAGCATTAAATGTTCGCAATGTGCTCCACGTGATGTTAATTTCTTGTTAGC
* *
1375964 TTAAAGTCCAGCATTAAGCCTTTCATGACATGTTCCACGTGATAT
194 TTAAAGTCCAGCATTAAACCTTTCATGACATGCTCCACGTGATAT
* *
1376009 TAATTTGTTGTTAGCTTAAAGTCCAGCCTTAAGCCTTTTGTAACGTGCTCCACGTGAGGTTAATT
1 TAATTTGTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTTGTAACGTGCTCCACGTGATGTTAATT
** * * * *
1376074 TGCCGTTAGCTTAAAGTCCAGCCTTAAGCCTTTTGTAACGTGTTCCATGTGATGTTAATTTGCTG
66 TGTTGTTAGCTTAAA-TCCAGCATTAAGCCTTTCGCAACGAGTTCCATGTGATGTTAATTTGCTG
* * * * * *
1376139 TTAGCTTAAAGT-CCAGCCTTAAGCCT-TTTGTAACT-TGTTCCACGTGATGTTAATTTGTTGTT
130 TTAGCTTAAA-TCCCAGCATTAA--ATGTTCGCAA-TGTGCTCCACGTGATGTTAATTTCTTGTT
* ** *
1376201 TGCTTAAA-TCCCAGCATTAAACCTTTC-TGATGTGCTCCGCGTG-TCAT
191 AGCTTAAAGT-CCAGCATTAAACCTTTCATGACATGCTCCACGTGAT-AT
* * ** ** *
1376248 TAGTTTGTTGTTAACTTAAAGTCTTGCATTAAGCCTTTCATAACGTGCTCCACATGATGTTAATT
1 TAATTTGTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTTGTAACGTGCTCCACGTGATGTTAATT
1376313 TGTTGTTAGCTTAAATCCTAGCATTAAG
66 TGTTGTTAGCTTAAATCC-AGCATTAAG
1376341 TCTTCTCCAA
Statistics
Matches: 282, Mismatches: 41, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
238 4 0.01
239 221 0.78
240 55 0.20
241 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (238 bp):
TAATTTGTTGTTAGCTTAAAGTCCAGCATTAAGCCTTTTGTAACGTGCTCCACGTGATGTTAATT
TGTTGTTAGCTTAAATCCAGCATTAAGCCTTTCGCAACGAGTTCCATGTGATGTTAATTTGCTGT
TAGCTTAAATCCCAGCATTAAATGTTCGCAATGTGCTCCACGTGATGTTAATTTCTTGTTAGCTT
AAAGTCCAGCATTAAACCTTTCATGACATGCTCCACGTGATAT
Found at i:1376313 original size:299 final size:298
Alignment explanation
Indices: 1375770--1376340 Score: 792
Period size: 299 Copynumber: 1.9 Consensus size: 298
1375760 CTCAAGGTAA
* **
1375770 TAATTTGTCGTTAGCTTAAATCCCAGCATTAAGCCTTTTGTATTGAGTTCCATGTGATGTTAATT
1 TAATTTGCCGTTAGCTTAAATCCCAGCATTAAGCCTTTTGTAACGAGTTCCATGTGATGTTAATT
* *
1375835 TGTTGTTAGCTTAAATACCAGCATTAAGCCTTTCGCAACGAGTTCCATGTGATGTTAATTTGTTG
66 TGCTGTTAGCTTAAATACCAGCATTAAGCCTTTCGCAACGAGTTCCACGTGATGTTAATTTGTTG
* ** *
1375900 TTAGCTTAAATCCCTGCATTAAATGTTCGCAATGTGCTCCACGTGTTGTTAATTTCTTGTTAGCT
131 TTAGCTTAAATCCCAGCATTAAATGTTCG-AATGTGCTCCACGTGTCATTAATTTCTTGTTAACT
* * *
1375965 TAAAGTCCAGCATTAAGCCTTTCATGACATGTTCCACGTGATATTAATTTGTTGTTAGCTTAAAG
195 TAAAGTCCAGCATTAAGCCTTTCATAACATGCTCCACATGATATTAATTTGTTGTTAGCTTAAA-
*
1376030 TCC-AGCCTTAAGCCTTTTGTAACGTGCTCCACGTGAGGT
259 TCCTAGCATTAAGCCTTTTGTAACGTGCTCCACGTGAGGT
* *
1376069 TAATTTGCCGTTAGCTTAAAGT-CCAGCCTTAAGCCTTTTGTAACGTGTTCCATGTGATGTTAAT
1 TAATTTGCCGTTAGCTTAAA-TCCCAGCATTAAGCCTTTTGTAACGAGTTCCATGTGATGTTAAT
* * * **
1376133 TTGCTGTTAGCTTAAAGT-CCAGCCTTAAGCCTTTTGTAACTTGTTCCACGTGATGTTAATTTGT
65 TTGCTGTTAGCTTAAA-TACCAGCATTAAGCCTTTCGCAACGAGTTCCACGTGATGTTAATTTGT
* * * *
1376197 TGTTTGCTTAAATCCCAGCATTAAACCT-TTCTG-ATGTGCTCCGCGTGTCATTAGTTTGTTGTT
129 TGTTAGCTTAAATCCCAGCATTAAA--TGTTC-GAATGTGCTCCACGTGTCATTAATTTCTTGTT
** * *
1376260 AACTTAAAGTCTTGCATTAAGCCTTTCATAACGTGCTCCACATGATGTTAATTTGTTGTTAGCTT
191 AACTTAAAGTCCAGCATTAAGCCTTTCATAACATGCTCCACATGATATTAATTTGTTGTTAGCTT
1376325 AAATCCTAGCATTAAG
256 AAATCCTAGCATTAAG
1376341 TCTTCTCCAA
Statistics
Matches: 238, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
298 3 0.01
299 228 0.96
300 5 0.02
301 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (298 bp):
TAATTTGCCGTTAGCTTAAATCCCAGCATTAAGCCTTTTGTAACGAGTTCCATGTGATGTTAATT
TGCTGTTAGCTTAAATACCAGCATTAAGCCTTTCGCAACGAGTTCCACGTGATGTTAATTTGTTG
TTAGCTTAAATCCCAGCATTAAATGTTCGAATGTGCTCCACGTGTCATTAATTTCTTGTTAACTT
AAAGTCCAGCATTAAGCCTTTCATAACATGCTCCACATGATATTAATTTGTTGTTAGCTTAAATC
CTAGCATTAAGCCTTTTGTAACGTGCTCCACGTGAGGT
Found at i:1393989 original size:30 final size:28
Alignment explanation
Indices: 1393913--1393994 Score: 67
Period size: 30 Copynumber: 2.8 Consensus size: 28
1393903 AAATTATGAA
*
1393913 TTTAGTACTTATA-TTTTAATTTTATCAAT
1 TTTAGT-CTTATATTTTTAA-TTGATCAAT
* * *
1393942 TTTAGTATTACACTTTTTGAATTGATCATT
1 TTTAGTCTTATA-TTTTT-AATTGATCAAT
1393972 TTTAGTCCTTATATTTTTCAATT
1 TTTAGT-CTTATATTTTT-AATT
1393995 TTTAAAATTG
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
28 4 0.10
29 6 0.14
30 26 0.62
31 6 0.14
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.57
Consensus pattern (28 bp):
TTTAGTCTTATATTTTTAATTGATCAAT
Found at i:1398922 original size:41 final size:41
Alignment explanation
Indices: 1398865--1398945 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
1398855 AAACCTGGGT
*
1398865 CCTTTAGTTCAATGTAA-GCTAAAAACTAGTGTAACTAGGGC
1 CCTTTAGTTCAATGTAATG-TAAAAAATAGTGTAACTAGGGC
1398906 CCTTTAGTTCAATGTAATGTAAAAAATAGTGTAACTAGGG
1 CCTTTAGTTCAATGTAATGTAAAAAATAGTGTAACTAGGG
1398946 ATGGCAATAG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 37 0.97
42 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (41 bp):
CCTTTAGTTCAATGTAATGTAAAAAATAGTGTAACTAGGGC
Found at i:1407127 original size:90 final size:90
Alignment explanation
Indices: 1406996--1407380 Score: 400
Period size: 89 Copynumber: 4.2 Consensus size: 90
1406986 CAAAAAAAAA
* * **
1406996 AAAACTCTAGAATTCAAACTTTTTTAAAAAAAAATTCAAATATTTGAACTGAATCACTTACAAAA
1 AAAACTCTATAATTCAAAC--ATTT-AAAAAAAATTCAAATATGCGAACTGAATCACTTACAAAA
* *
1407061 TTCATCTGCATAATTACAAAGCCAAATT
63 CTCATCTGCAAAATTACAAAGCCAAATT
* * * *
1407089 AAAACTCTATAATTTAAACATTTAAAAAAAATTCAAATATGCGAAGTGGATCACTTACAAGACTC
1 AAAACTCTATAATTCAAACATTTAAAAAAAATTCAAATATGCGAACTGAATCACTTACAAAACTC
*
1407154 ATCTGCAAAATTACAAAGCTAAATT
66 ATCTGCAAAATTACAAAGCCAAATT
* * * * * * * *
1407179 AAAACTC---AATTCAAACTTTTTTTTTTACAAAAATTCAAATACGTGAACGGAACCACTTACGA
1 AAAACTCTATAATTCAAAC-----ATTTAAAAAAAATTCAAATATGCGAACTGAATCACTTACAA
*
1407241 AACTCATCTGCAAAATTACAAAGCCAAATA
61 AACTCATCTGCAAAATTACAAAGCCAAATT
* * ***** *
1407271 AAAACTCTAGAATACAAACATTT-TTTTTAATTCAAATATGCGAACTGAATCACTTACAAAACTT
1 AAAACTCTATAATTCAAACATTTAAAAAAAATTCAAATATGCGAACTGAATCACTTACAAAACTC
*
1407335 ATCTGCAAAATTACAAAGCTAAATT
66 ATCTGCAAAATTACAAAGCCAAATT
*
1407360 AAACCTCTATAATTCAAACAT
1 AAAACTCTATAATTCAAACAT
1407381 GAAAGAGAAA
Statistics
Matches: 241, Mismatches: 43, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
87 8 0.03
89 71 0.29
90 69 0.29
91 3 0.01
92 65 0.27
93 17 0.07
95 8 0.03
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (90 bp):
AAAACTCTATAATTCAAACATTTAAAAAAAATTCAAATATGCGAACTGAATCACTTACAAAACTC
ATCTGCAAAATTACAAAGCCAAATT
Found at i:1407238 original size:182 final size:181
Alignment explanation
Indices: 1407025--1407362 Score: 487
Period size: 182 Copynumber: 1.9 Consensus size: 181
1407015 TTTTTTAAAA
** * * * * *
1407025 AAAAATTCAAATATTTGAACTGAATCACTTACAAAATTCATCTGCATAATTACAAAGCCAAATTA
1 AAAAATTCAAATACGTGAACGGAACCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATAA
* ** * * *
1407090 AAACTCTATAATTTAAACATTTAAAAAAAATTCAAATATGCGAAGTGGATCACTTACAAGACTCA
66 AAACTCTAGAATACAAACATTT-AAAAAAATTCAAATATGCGAACTGAATCACTTACAAAACTCA
1407155 TCTGCAAAATTACAAAGCTAAATTAAAACTCAATTCAAACTTTTTTTTTTAC
130 TCTGCAAAATTACAAAGCTAAATTAAAACTCAATTCAAACTTTTTTTTTTAC
*
1407207 AAAAATTCAAATACGTGAACGGAACCACTTACGAAACTCATCTGCAAAATTACAAAGCCAAATAA
1 AAAAATTCAAATACGTGAACGGAACCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATAA
***** *
1407272 AAACTCTAGAATACAAACATTTTTTTTAATTCAAATATGCGAACTGAATCACTTACAAAACTTAT
66 AAACTCTAGAATACAAACATTTAAAAAAATTCAAATATGCGAACTGAATCACTTACAAAACTCAT
1407337 CTGCAAAATTACAAAGCTAAATTAAA
131 CTGCAAAATTACAAAGCTAAATTAAA
1407363 CCTCTATAAT
Statistics
Matches: 136, Mismatches: 20, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
181 60 0.44
182 76 0.56
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (181 bp):
AAAAATTCAAATACGTGAACGGAACCACTTACAAAACTCATCTGCAAAATTACAAAGCCAAATAA
AAACTCTAGAATACAAACATTTAAAAAAATTCAAATATGCGAACTGAATCACTTACAAAACTCAT
CTGCAAAATTACAAAGCTAAATTAAAACTCAATTCAAACTTTTTTTTTTAC
Found at i:1408118 original size:14 final size:14
Alignment explanation
Indices: 1408099--1408128 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1408089 TTTCATAAAT
1408099 TTATAATTTAATCC
1 TTATAATTTAATCC
*
1408113 TTATAATTTAGTCC
1 TTATAATTTAATCC
1408127 TT
1 TT
1408129 TTAACTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.03, T:0.53
Consensus pattern (14 bp):
TTATAATTTAATCC
Found at i:1408876 original size:25 final size:24
Alignment explanation
Indices: 1408848--1408895 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1408838 TTTACATCAT
1408848 GATAGTGTAAATTTGTCACTATATG
1 GATAGTG-AAATTTGTCACTATATG
* *
1408873 GATATTGAAATTTGTCGCTATAT
1 GATAGTGAAATTTGTCACTATAT
1408896 TTATTTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (24 bp):
GATAGTGAAATTTGTCACTATATG
Found at i:1414693 original size:14 final size:15
Alignment explanation
Indices: 1414674--1414714 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
1414664 AAATTTAAGT
1414674 AAATATAAAT-TTTA
1 AAATATAAATATTTA
*
1414688 AAATATATATATTTA
1 AAATATAAATATTTA
1414703 AACATA-AAATAT
1 AA-ATATAAATAT
1414715 ATTGTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.39
15 11 0.48
16 3 0.13
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATAAATATTTA
Found at i:1415407 original size:13 final size:13
Alignment explanation
Indices: 1415391--1415415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1415381 TAAAAGAATA
1415391 AATTAAACCGATC
1 AATTAAACCGATC
1415404 AATTAAACCGAT
1 AATTAAACCGAT
1415416 AACTCTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
AATTAAACCGATC
Found at i:1417067 original size:29 final size:32
Alignment explanation
Indices: 1417015--1417073 Score: 79
Period size: 29 Copynumber: 1.9 Consensus size: 32
1417005 TAGTAAAAAT
1417015 AAAATTTCACTTTAATCCCCT-AAAATTATTA
1 AAAATTTCACTTTAATCCCCTAAAAATTATTA
**
1417046 AAAATTT-A-TTTAATCCTTTAAAAATTAT
1 AAAATTTCACTTTAATCCCCTAAAAATTAT
1417074 AAAGATATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 9 0.36
31 7 0.28
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (32 bp):
AAAATTTCACTTTAATCCCCTAAAAATTATTA
Found at i:1417612 original size:23 final size:23
Alignment explanation
Indices: 1417545--1417616 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
1417535 TATTATTAAA
* *
1417545 ATTTATATTTACATATAA-ATAT
1 ATTTATATATATATATAATATAT
* **
1417567 ATTTATATATGTA-ATTTTGATAT
1 ATTTATATATATATATAAT-ATAT
*
1417590 ATTTATATGTATATATAATATAT
1 ATTTATATATATATATAATATAT
1417613 ATTT
1 ATTT
1417617 TTTAAACTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
21 2 0.05
22 10 0.26
23 23 0.61
24 3 0.08
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (23 bp):
ATTTATATATATATATAATATAT
Found at i:1417702 original size:67 final size:71
Alignment explanation
Indices: 1417628--1417762 Score: 188
Period size: 67 Copynumber: 1.9 Consensus size: 71
1417618 TTAAACTAAT
* *
1417628 ATATAATTTATTAAGAAACTAAAAATTAG-GCT-ATA-A-ATATATATATATGAAAAATATTTAA
1 ATATAATTTATCAAGAAACTAAAAATTAGTGCTAATATATATATATATATAAGAAAAATATTTAA
1417689 ATGTAC
66 ATGTAC
* *
1417695 ATATAATTTATCAATAAACTAAAAATTAGATTGTTAATATATATATATATATAAGAAAAATATTT
1 ATATAATTTATCAAGAAACTAAAAATTAG--TGCTAATATATATATATATATAAGAAAAATATTT
1417760 AAA
64 AAA
1417763 AACAACGATA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
67 27 0.47
70 2 0.03
71 3 0.05
72 1 0.02
73 25 0.43
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (71 bp):
ATATAATTTATCAAGAAACTAAAAATTAGTGCTAATATATATATATATATAAGAAAAATATTTAA
ATGTAC
Found at i:1417958 original size:13 final size:14
Alignment explanation
Indices: 1417935--1417975 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
1417925 AATTATTATT
*
1417935 TTAAGTATAAAATA
1 TTAATTATAAAATA
*
1417949 TT-TTTATAAAAT-
1 TTAATTATAAAATA
1417961 TTAATTATAAAATA
1 TTAATTATAAAATA
1417975 T
1 T
1417976 AAAAAATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
12 2 0.09
13 17 0.77
14 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
TTAATTATAAAATA
Found at i:1418413 original size:20 final size:20
Alignment explanation
Indices: 1418371--1418414 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1418361 ACATTTTGGG
*
1418371 TTTTTTTTTTATTTTTGTAA
1 TTTTTTTTTTATTTTTCTAA
*
1418391 TTTTTTCTTTTCTTTTTCT-A
1 TTTTTT-TTTTATTTTTCTAA
1418411 TTTT
1 TTTT
1418415 ATAAATATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTTTTTTTTATTTTTCTAA
Found at i:1425659 original size:31 final size:31
Alignment explanation
Indices: 1425623--1425688 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
1425613 AGATATGATC
1425623 TTTTAAATACACGAAAATATTAGAACTCGAA
1 TTTTAAATACACGAAAATATTAGAACTCGAA
1425654 TTTTAAATACACGAAAATATTAGAACTCGAA
1 TTTTAAATACACGAAAATATTAGAACTCGAA
1425685 TTTT
1 TTTT
1425689 TTGTATTACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (31 bp):
TTTTAAATACACGAAAATATTAGAACTCGAA
Found at i:1445997 original size:17 final size:17
Alignment explanation
Indices: 1445975--1446008 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1445965 CATTTACGAG
1445975 CCAAATGTCGTTTTTAA
1 CCAAATGTCGTTTTTAA
*
1445992 CCAAATGTGGTTTTTAA
1 CCAAATGTCGTTTTTAA
1446009 AAGATTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (17 bp):
CCAAATGTCGTTTTTAA
Found at i:1446950 original size:21 final size:21
Alignment explanation
Indices: 1446902--1446943 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1446892 TTTTCCTAGG
* *
1446902 ATGTGAATTAGATTGAATTGA
1 ATGTAAATTAGATTAAATTGA
*
1446923 ATGTAAATTATATTAAATTGA
1 ATGTAAATTAGATTAAATTGA
1446944 TGCTAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (21 bp):
ATGTAAATTAGATTAAATTGA
Found at i:1447533 original size:24 final size:24
Alignment explanation
Indices: 1447506--1447564 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
1447496 GCTATCTGAT
1447506 GCTACCCGTTAATTGCTCTTCGAA
1 GCTACCCGTTAATTGCTCTTCGAA
* *
1447530 GCTACCCGTTGATTGCTCTTCGGA
1 GCTACCCGTTAATTGCTCTTCGAA
1447554 GCTACCCGTTA
1 GCTACCCGTTA
1447565 TAGGCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.17, C:0.31, G:0.20, T:0.32
Consensus pattern (24 bp):
GCTACCCGTTAATTGCTCTTCGAA
Found at i:1449795 original size:36 final size:36
Alignment explanation
Indices: 1449747--1449818 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
1449737 GGTTGGTGTC
*
1449747 GGTGTTTGAGGGTCAAGCTAAATCTGAGCTTAGATT
1 GGTGTTTCAGGGTCAAGCTAAATCTGAGCTTAGATT
1449783 GGTGTTTCAGGGTCAAGCTAAATCTGAGCTTAGATT
1 GGTGTTTCAGGGTCAAGCTAAATCTGAGCTTAGATT
1449819 TTTTTTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.33
Consensus pattern (36 bp):
GGTGTTTCAGGGTCAAGCTAAATCTGAGCTTAGATT
Found at i:1452683 original size:15 final size:17
Alignment explanation
Indices: 1452658--1452689 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1452648 GGAAAAATGA
1452658 ATTTTTAAAATT-TTTT
1 ATTTTTAAAATTATTTT
1452674 ATTTTT-AAATTATTTT
1 ATTTTTAAAATTATTTT
1452690 TTTGAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTAAAATTATTTT
Found at i:1454098 original size:14 final size:14
Alignment explanation
Indices: 1454033--1454097 Score: 94
Period size: 14 Copynumber: 4.5 Consensus size: 14
1454023 AATAACTGAT
1454033 AATATTTTCCGTAA
1 AATATTTTCCGTAA
1454047 AATATTTTCCGTAA
1 AATATTTTCCGTAA
* *
1454061 AATAATTGCCAGTAA
1 AATATTTTCC-GTAA
1454076 AATATTTTCCGTAA
1 AATATTTTCCGTAA
1454090 AATGATTT
1 AAT-ATTT
1454098 CTGGAAAATG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
14 29 0.64
15 16 0.36
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (14 bp):
AATATTTTCCGTAA
Found at i:1454120 original size:20 final size:20
Alignment explanation
Indices: 1454095--1454134 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1454085 CGTAAAATGA
*
1454095 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
1454115 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
1454135 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:1454124 original size:34 final size:35
Alignment explanation
Indices: 1454080--1454146 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
1454070 CAGTAAAATA
*
1454080 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
1454114 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
1454147 CTGATGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:1458501 original size:45 final size:45
Alignment explanation
Indices: 1458417--1458503 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
1458407 CAATAGAAGT
* * *
1458417 TCATTACAAATCTTAACCTTTCATATCCTCCTCCTATTGGAGCGG
1 TCATTACAAATCTCAACCCTTCATATCCTCCTCCAATTGGAGCGG
* * *
1458462 TCATTACAAATCTCAACCCTTCATCTCCTCTTTCAATTGGAG
1 TCATTACAAATCTCAACCCTTCATATCCTCCTCCAATTGGAG
1458504 ATCTCAACCC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (45 bp):
TCATTACAAATCTCAACCCTTCATATCCTCCTCCAATTGGAGCGG
Found at i:1461545 original size:63 final size:62
Alignment explanation
Indices: 1461434--1461623 Score: 263
Period size: 63 Copynumber: 3.0 Consensus size: 62
1461424 GATCTCAATC
* * * *
1461434 CTTCGTCTACTCCTTTTATTGGAGCTTCAATAGAAGGTCATTACAAATCTTAGCCCTTCATCT
1 CTTCATCT-CTCCTTCTATTGGAGCTCCAATAGAAGGTCATTACAAATCTCAGCCCTTCATCT
* * *
1461497 TTTCATCTTCTCCTTCTATTGGAGCTCCAATAGAAGGTCAATATAAATCTCAGCCCTTCATCT
1 CTTCATC-TCTCCTTCTATTGGAGCTCCAATAGAAGGTCATTACAAATCTCAGCCCTTCATCT
* * *
1461560 CTTCATCTCATCTTTCTATTTGAGCTCCAATAGAATGTCATTACAAATCTCAGCCCTTCATCT
1 CTTCATCTC-TCCTTCTATTGGAGCTCCAATAGAAGGTCATTACAAATCTCAGCCCTTCATCT
1461623 C
1 C
1461624 CTCCTTTCTC
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
62 2 0.02
63 109 0.97
64 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.37
Consensus pattern (62 bp):
CTTCATCTCTCCTTCTATTGGAGCTCCAATAGAAGGTCATTACAAATCTCAGCCCTTCATCT
Found at i:1462523 original size:16 final size:17
Alignment explanation
Indices: 1462491--1462524 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1462481 TTCTTCTTTT
1462491 CTTTCCTCTCATTTTCC
1 CTTTCCTCTCATTTTCC
*
1462508 CTTTTCTCTC-TTTTCC
1 CTTTCCTCTCATTTTCC
1462524 C
1 C
1462525 ACCCTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.03, C:0.41, G:0.00, T:0.56
Consensus pattern (17 bp):
CTTTCCTCTCATTTTCC
Found at i:1462531 original size:20 final size:21
Alignment explanation
Indices: 1462506--1462544 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1462496 CTCTCATTTT
*
1462506 CCCTTTTC-TCTCTTTTCCCA
1 CCCTTTTCTTCTCTATTCCCA
1462526 CCCTTTTCTTCTCTATTCC
1 CCCTTTTCTTCTCTATTCC
1462545 TTCACCTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.05, C:0.44, G:0.00, T:0.51
Consensus pattern (21 bp):
CCCTTTTCTTCTCTATTCCCA
Found at i:1466686 original size:3 final size:3
Alignment explanation
Indices: 1466663--1466745 Score: 64
Period size: 3 Copynumber: 27.0 Consensus size: 3
1466653 CTTTTTACAC
* *
1466663 TTA TCTA TTCA TTA TTA -TA TTA TTA -TA TCA -TA TTA TTA TTT TTGAA
1 TTA T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A
* *
1466709 TTA TTA GTA TTA TTA TTA TTAA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
1466746 GTTTTATTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
2 5 0.08
3 48 0.75
4 9 0.14
5 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:1466693 original size:19 final size:20
Alignment explanation
Indices: 1466671--1466745 Score: 68
Period size: 19 Copynumber: 3.9 Consensus size: 20
1466661 ACTTATCTAT
1466671 TCATTATTA-TATTATTATA
1 TCATTATTATTATTATTATA
*
1466690 TCA-TATTATTATTTTTGA-A
1 TCATTATTATTATTATT-ATA
* *
1466709 TTATTAGTATTATTATTAT-
1 TCATTATTATTATTATTATA
* *
1466728 TAATTATTATCATTATTA
1 TCATTATTATTATTATTA
1466746 GTTTTATTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
18 5 0.11
19 28 0.62
20 12 0.27
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (20 bp):
TCATTATTATTATTATTATA
Found at i:1467112 original size:4 final size:4
Alignment explanation
Indices: 1467103--1467140 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
1467093 ATACATATCT
1467103 TTTA TTTA TTT- TCTTCA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA T-TT-A TTTA TTTA TTTA TTTA TTTA T
1467141 ATGTCCGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 1 0.03
4 27 0.87
5 2 0.06
6 1 0.03
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:1468330 original size:20 final size:20
Alignment explanation
Indices: 1468298--1468362 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
1468288 TTATATTTGG
1468298 TATTTTGTAATCTATACATA
1 TATTTTGTAATCTATACATA
*
1468318 TATTTATGT-ATCTTTACATA
1 TATTT-TGTAATCTATACATA
*
1468338 TATATATTTTAAT-TCATACATA
1 TAT-T-TTGTAATCT-ATACATA
1468360 TAT
1 TAT
1468363 ATACGCACAC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 18 0.49
21 7 0.19
22 12 0.32
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.52
Consensus pattern (20 bp):
TATTTTGTAATCTATACATA
Found at i:1468495 original size:20 final size:20
Alignment explanation
Indices: 1468456--1468495 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1468446 ATGCATATAT
* * *
1468456 TTTCTTAATATGTATTCATA
1 TTTCATAATATATATACATA
1468476 TTTCATAATATATATACATA
1 TTTCATAATATATATACATA
1468496 CATATATACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTCATAATATATATACATA
Found at i:1468648 original size:29 final size:28
Alignment explanation
Indices: 1468616--1468709 Score: 82
Period size: 29 Copynumber: 3.1 Consensus size: 28
1468606 TATTATTTAT
1468616 ATATCTTTATATACATATTTTTAATTTCC
1 ATATC-TTATATACATATTTTTAATTTCC
* * *
1468645 ATATC-TATATACTTTATATTTTATTTATCTAT
1 ATATCTTATATAC-ATAT-TTTTAATT-TC--C
*
1468677 ATATCCTTGTATACATATTTTTAATTTCC
1 ATAT-CTTATATACATATTTTTAATTTCC
1468706 ATAT
1 ATAT
1468710 ATATACATGC
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
27 7 0.14
28 3 0.06
29 16 0.31
30 2 0.04
31 2 0.04
32 11 0.22
33 4 0.08
34 6 0.12
ACGTcount: A:0.31, C:0.13, G:0.01, T:0.55
Consensus pattern (28 bp):
ATATCTTATATACATATTTTTAATTTCC
Found at i:1468663 original size:55 final size:59
Alignment explanation
Indices: 1468591--1468714 Score: 159
Period size: 61 Copynumber: 2.2 Consensus size: 59
1468581 TATATACTTT
*
1468591 ATATCT-TATACCTTATA-TTA-T-T-TATATATCTTTATATACATATTTTTAATTTCC
1 ATATCTATATACCTTATATTTATTATCTATATATCCTTATATACATATTTTTAATTTCC
* *
1468645 ATATCTATATACTTTATATTTTATTTATCTATATATCCTTGTATACATATTTTTAATTTCC
1 ATATCTATATACCTTATA-TTTA-TTATCTATATATCCTTATATACATATTTTTAATTTCC
*
1468706 ATATATATA
1 ATATCTATA
1468715 CATGCTTGCA
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
54 6 0.10
55 10 0.17
57 3 0.05
59 1 0.02
60 1 0.02
61 38 0.64
ACGTcount: A:0.32, C:0.12, G:0.01, T:0.55
Consensus pattern (59 bp):
ATATCTATATACCTTATATTTATTATCTATATATCCTTATATACATATTTTTAATTTCC
Found at i:1468739 original size:61 final size:60
Alignment explanation
Indices: 1468612--1468739 Score: 143
Period size: 61 Copynumber: 2.1 Consensus size: 60
1468602 CTTATATTAT
* * * * *
1468612 TTATATATCTTTATATACATATTTTTAATTTCCATATCTATATACTTTATATTTTATTTA
1 TTATATATCCTTATATACATATTTTTAATTTCCATATATATATACTTCATATTTTACTCA
* *
1468672 TCTATATATCCTTGTATACATATTTTTAATTTCCATATATATACATGCTTGCATA-TTT-CTCA
1 T-TATATATCCTTATATACATATTTTTAATTTCCATATATAT--ATACTT-CATATTTTACTCA
1468734 TTATAT
1 TTATAT
1468740 CTTATACTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
60 1 0.02
61 42 0.74
62 3 0.05
63 8 0.14
64 3 0.05
ACGTcount: A:0.30, C:0.13, G:0.02, T:0.54
Consensus pattern (60 bp):
TTATATATCCTTATATACATATTTTTAATTTCCATATATATATACTTCATATTTTACTCA
Found at i:1483481 original size:23 final size:26
Alignment explanation
Indices: 1483455--1483503 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 26
1483445 ATTATATATT
1483455 AAATATA-TTT-TTTTATT-TTAATC
1 AAATATACTTTGTTTTATTATTAATC
1483478 AAATATACTTTTGTTTTATTATTAAT
1 AAATATAC-TTTGTTTTATTATTAAT
1483504 TTGGCTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.32
25 3 0.14
26 7 0.32
27 5 0.23
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (26 bp):
AAATATACTTTGTTTTATTATTAATC
Found at i:1485033 original size:50 final size:50
Alignment explanation
Indices: 1484917--1485219 Score: 374
Period size: 50 Copynumber: 5.8 Consensus size: 50
1484907 GATCATAACA
* * ** *
1484917 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCT-CTCATCTCGG
*
1484968 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGG-GACCTCTCATCTCGG
* * *
1485018 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
1485068 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
1485118 TGCCAATGCCATGTCCCAGACATAGTCTTACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGT-CC---C--AG----ACATGGTCTTACAGGGGACCTCTCATCTCGG
*
1485178 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1485220 TTACCCAAAT
Statistics
Matches: 222, Mismatches: 18, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
50 135 0.61
51 36 0.16
54 3 0.01
56 3 0.01
59 2 0.01
60 43 0.19
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:1485093 original size:100 final size:100
Alignment explanation
Indices: 1484917--1485217 Score: 406
Period size: 110 Copynumber: 2.9 Consensus size: 100
1484907 GATCATAACA
** *
1484917 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGGTGCCCATGCCATGT
*
1484982 CCCAGACATGGTCTTAC-GGGAGACCTCTCATCTCGG
65 CCCAGACATGGTCTTACAGGG-GACCTATCATCTCGG
* *
1485018 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGGTGCCCATGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGTC
1485083 CCAGACATGGTCTTACAGGGGACCTATCATCTCGG
66 CCAGACATGGTCTTACAGGGGACCTATCATCTCGG
* *
1485118 TGCCAATGCCATGTCCCAGACATAGTCTTACATGGTCTTACATGGGACCTCTCATCTCGGTGCCA
1 TGCCAAAGCCATGT-CC---C--AG----ACATGGTCTTACATGGGACCTCTCATCTCGGTGCCC
*
1485183 ATGCCATGTCCCAGACATGGTCTTACATGGGACCT
56 ATGCCATGTCCCAGACATGGTCTTACAGGGGACCT
1485218 CTTTACCCAA
Statistics
Matches: 179, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
100 67 0.37
101 41 0.23
104 1 0.01
106 2 0.01
110 68 0.38
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.26
Consensus pattern (100 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGTC
CCAGACATGGTCTTACAGGGGACCTATCATCTCGG
Found at i:1485180 original size:60 final size:60
Alignment explanation
Indices: 1485087--1485212 Score: 225
Period size: 60 Copynumber: 2.1 Consensus size: 60
1485077 CATGTCCCAG
1485087 ACATGGTCTTACAGGGGACCTATCATCTCGGTGCCAATGCCATGTCCCAGACATAGTCTT
1 ACATGGTCTTACAGGGGACCTATCATCTCGGTGCCAATGCCATGTCCCAGACATAGTCTT
* * *
1485147 ACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTT
1 ACATGGTCTTACAGGGGACCTATCATCTCGGTGCCAATGCCATGTCCCAGACATAGTCTT
1485207 ACATGG
1 ACATGG
1485213 GACCTCTTTA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (60 bp):
ACATGGTCTTACAGGGGACCTATCATCTCGGTGCCAATGCCATGTCCCAGACATAGTCTT
Found at i:1485335 original size:13 final size:13
Alignment explanation
Indices: 1485314--1485344 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1485304 GCTTGGATCA
*
1485314 TCATCAAATAAAT
1 TCATAAAATAAAT
1485327 TCATAAAATAAAT
1 TCATAAAATAAAT
1485340 TCATA
1 TCATA
1485345 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1496671 original size:19 final size:18
Alignment explanation
Indices: 1496636--1496671 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1496626 GAAGCAAGCA
*
1496636 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
1496654 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
1496672 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:1508925 original size:2 final size:2
Alignment explanation
Indices: 1508920--1508946 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1508910 ATATATACAT
1508920 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1508947 CCTGCAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1519936 original size:78 final size:78
Alignment explanation
Indices: 1519807--1519963 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
1519797 ACATTTTTCA
1519807 ATAAATGGAGCATGCTTAAGAGATTTTTAGACAATCCTTATTCTCAATGGGATTGAGTGAGGCAA
1 ATAAATGGAGCATGCTTAAGAGATTTTTAGACAATCCTTATTCTCAATGGGATTGAGTGAGGCAA
1519872 CCCTAGTAGTGTG
66 CCCTAGTAGTGTG
1519885 ATAAATGGAGCATGCTTAAGAGATTTTTAGACAATCCTTATTCTCAATGGGATTGAGTGAGGCAA
1 ATAAATGGAGCATGCTTAAGAGATTTTTAGACAATCCTTATTCTCAATGGGATTGAGTGAGGCAA
1519950 CCCTAGTAGTGTG
66 CCCTAGTAGTGTG
1519963 A
1 A
1519964 AGTCGATAGT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (78 bp):
ATAAATGGAGCATGCTTAAGAGATTTTTAGACAATCCTTATTCTCAATGGGATTGAGTGAGGCAA
CCCTAGTAGTGTG
Found at i:1525652 original size:18 final size:18
Alignment explanation
Indices: 1525617--1525656 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1525607 CCAACTGGTC
*
1525617 AAATTAAAAAATTATTAA
1 AAATTAAAAAAATATTAA
1525635 AAATTCAAAAAAAT-TTAA
1 AAATT-AAAAAAATATTAA
1525653 AAAT
1 AAAT
1525657 CTCGATTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATTAAAAAAATATTAA
Found at i:1530333 original size:17 final size:17
Alignment explanation
Indices: 1530313--1530348 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1530303 TTTTTTTGAA
1530313 TTAGTGAATTTTGTGAT
1 TTAGTGAATTTTGTGAT
1530330 TTAGTGAATTTTGTGAT
1 TTAGTGAATTTTGTGAT
1530347 TT
1 TT
1530349 TAAAAAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (17 bp):
TTAGTGAATTTTGTGAT
Found at i:1535526 original size:19 final size:20
Alignment explanation
Indices: 1535491--1535533 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
1535481 CTTTTGTAAA
1535491 TTTTTATACTTTCATATATT
1 TTTTTATACTTTCATATATT
1535511 TTTTTATA-TTAT-ATATATT
1 TTTTTATACTT-TCATATATT
1535530 TTTT
1 TTTT
1535534 AAAATTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTATACTTTCATATATT
Found at i:1537529 original size:30 final size:30
Alignment explanation
Indices: 1537495--1537565 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
1537485 GTATTACAAA
*
1537495 TATATTTTTACATAATTTATTTCATCCCAT
1 TATATTTTTACATAATTTATTTCAACCCAT
1537525 TATATTTTTACATAATTTATTTCAACCCAT
1 TATATTTTTACATAATTTATTTCAACCCAT
*
1537555 CATATTTTTAC
1 TATATTTTTAC
1537566 TTCTCCTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.52
Consensus pattern (30 bp):
TATATTTTTACATAATTTATTTCAACCCAT
Found at i:1545445 original size:19 final size:20
Alignment explanation
Indices: 1545402--1545444 Score: 65
Period size: 17 Copynumber: 2.3 Consensus size: 20
1545392 TCTTTTGTAA
1545402 ATTTTTATACTTTCATATAT
1 ATTTTTATACTTTCATATAT
1545422 ATTTTTATA--TT-ATATAT
1 ATTTTTATACTTTCATATAT
1545439 ATTTTT
1 ATTTTT
1545445 TAAAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.52
18 2 0.09
20 9 0.39
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTTATACTTTCATATAT
Found at i:1547457 original size:5 final size:5
Alignment explanation
Indices: 1547449--1547474 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1547439 ATGATATGAG
1547449 TGTCA TGTCA TGTCA TGTCA TGTCA T
1 TGTCA TGTCA TGTCA TGTCA TGTCA T
1547475 TACACATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TGTCA
Found at i:1550972 original size:37 final size:37
Alignment explanation
Indices: 1550921--1551068 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
1550911 TAGCTAGGCT
****
1550921 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
1550958 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1550995 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1551032 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1551069 GCTAAAACTA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:1556334 original size:64 final size:63
Alignment explanation
Indices: 1556242--1556363 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 63
1556232 AAATGAATAG
* **
1556242 AAATGAAGAAATAAGAAACATTTGGAAATGATTATGGTTTTCTCCAAATATAAAAATGAAAATGA
1 AAATGAAGAAAT-AGAAACATTTGGAAATGAATATGACTTTCTCCAAA-ATAAAAATGAAAATGA
* * *
1556307 AAATGGAGAAAT-GAAATCATTTGGAAATGAATGTGACTTTCTCCAAAATGAAAATGA
1 AAATGAAGAAATAGAAA-CATTTGGAAATGAATATGACTTTCTCCAAAATAAAAATGA
1556364 CCTGAAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 13 0.26
64 26 0.52
65 11 0.22
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.27
Consensus pattern (63 bp):
AAATGAAGAAATAGAAACATTTGGAAATGAATATGACTTTCTCCAAAATAAAAATGAAAATGA
Found at i:1559022 original size:19 final size:20
Alignment explanation
Indices: 1558994--1559032 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1558984 TCGAAAGGGT
*
1558994 TCAAATTCAAAAA-AAAAAA
1 TCAAAATCAAAAACAAAAAA
1559013 TCAAAATCAAAAACAAAAAA
1 TCAAAATCAAAAACAAAAAA
1559033 GAAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (20 bp):
TCAAAATCAAAAACAAAAAA
Found at i:1559025 original size:20 final size:20
Alignment explanation
Indices: 1559005--1559079 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 20
1558995 CAAATTCAAA
*
1559005 AAAAAAAATCAAAATCAAAAAC
1 AAAAAAAA--AAAATCAAAATC
1559027 AAAAAAGAAAAGAA--AAAATC
1 AAAAAA-AAAA-AATCAAAATC
**
1559047 AAAGTAAAAAAATCAAAATC
1 AAAAAAAAAAAATCAAAATC
1559067 AAAATAAAAAAAA
1 AAAA-AAAAAAAA
1559080 AGAAAAAATC
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
18 2 0.05
19 4 0.09
20 18 0.42
21 9 0.21
22 8 0.19
23 2 0.05
ACGTcount: A:0.79, C:0.08, G:0.04, T:0.09
Consensus pattern (20 bp):
AAAAAAAAAAAATCAAAATC
Found at i:1559066 original size:46 final size:43
Alignment explanation
Indices: 1559006--1559099 Score: 143
Period size: 43 Copynumber: 2.1 Consensus size: 43
1558996 AAATTCAAAA
1559006 AAAAAAATCAAAATCAAAAACAAAAAAGAAAAGAAAAAATCAAAGT
1 AAAAAAATCAAAATC-AAAA-AAAAAA-AAAAGAAAAAATCAAAGT
*
1559052 AAAAAAATCAAAATCAAAATAAAAAAAAAGAAAAAATCAAAGT
1 AAAAAAATCAAAATCAAAAAAAAAAAAAAGAAAAAATCAAAGT
*
1559095 CAAAA
1 AAAAA
1559100 GTAAAAAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 22 0.48
44 5 0.11
45 4 0.09
46 15 0.33
ACGTcount: A:0.77, C:0.09, G:0.05, T:0.10
Consensus pattern (43 bp):
AAAAAAATCAAAATCAAAAAAAAAAAAAAGAAAAAATCAAAGT
Found at i:1559091 original size:29 final size:29
Alignment explanation
Indices: 1559053--1559133 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 29
1559043 AATCAAAGTA
*
1559053 AAAAAATCAAAATCAAAATAAAAAAAAAG
1 AAAAAATCAAAGTCAAAATAAAAAAAAAG
1559082 AAAAAATCAAAGTCAAAAGT--AAAAAAAG
1 AAAAAATCAAAGTCAAAA-TAAAAAAAAAG
* *
1559110 AAATCAATCAAAGTTAAAATAAAA
1 AAA-AAATCAAAGTCAAAATAAAA
1559134 TATGAAAAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
28 12 0.27
29 30 0.67
30 3 0.07
ACGTcount: A:0.73, C:0.07, G:0.06, T:0.14
Consensus pattern (29 bp):
AAAAAATCAAAGTCAAAATAAAAAAAAAG
Found at i:1559515 original size:7 final size:7
Alignment explanation
Indices: 1559503--1559535 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
1559493 GGATTTCAAA
1559503 AAAAATG
1 AAAAATG
1559510 AAAAATG
1 AAAAATG
*
1559517 -AGAATG
1 AAAAATG
1559523 AAAAATG
1 AAAAATG
1559530 AAAAAT
1 AAAAAT
1559536 AGAGAGGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:1559524 original size:13 final size:13
Alignment explanation
Indices: 1559506--1559530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1559496 TTTCAAAAAA
1559506 AATGAAAAATGAG
1 AATGAAAAATGAG
1559519 AATGAAAAATGA
1 AATGAAAAATGA
1559531 AAAATAGAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (13 bp):
AATGAAAAATGAG
Found at i:1560909 original size:87 final size:87
Alignment explanation
Indices: 1560758--1560930 Score: 274
Period size: 87 Copynumber: 2.0 Consensus size: 87
1560748 AGATCAGTGA
* * *
1560758 AGATGAAAAACAAAGCCTTACCTTCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATAAAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1560823 CTTCCTGCGTTAATAGCGAAGT
66 CTTCCTGCGTTAATAGCGAAGT
* * * *
1560845 AGATAAAAAACGAAGCCTTGCCTCCATCGGTTGCAGTGGAGTTGGTTGAAGATAGCAGATCTTGC
1 AGATAAAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
1560910 CTTCCTGTGTTAATAGCGAAG
66 CTTCCTGCGTTAATAGCGAAG
1560931 CATCTTGCTT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (87 bp):
AGATAAAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCGTTAATAGCGAAGT
Found at i:1560936 original size:29 final size:29
Alignment explanation
Indices: 1560903--1560961 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
1560893 AAGATAGCAG
* * *
1560903 ATCTTGCCTTCCTGTGTTAATAGCGAAGC
1 ATCTTGCCTTCCTGCGTCAACAGCGAAGC
*
1560932 ATCTTGCTTTCCTGCGTCAACAGCGAAGC
1 ATCTTGCCTTCCTGCGTCAACAGCGAAGC
1560961 A
1 A
1560962 GATCGAAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (29 bp):
ATCTTGCCTTCCTGCGTCAACAGCGAAGC
Found at i:1561013 original size:116 final size:116
Alignment explanation
Indices: 1560816--1561032 Score: 317
Period size: 116 Copynumber: 1.9 Consensus size: 116
1560806 AAGATAGCAG
* * * * *
1560816 ATCTTGCCTTCCTGCGTTAATAGCGAAGTAGATAAAAAACGAAGCCTTGCCTCCATCGGTTGCAG
1 ATCTTGCCTTCCTGCGTCAACAGCGAAGCAGATAAAAAACAAAGCATTGCCTCCATCGGTTGCAG
* * * *
1560881 TGGAGTTGGTTGAAGATAGCAGATCTTGCCTTCCTGTGTTAATAGCGAAGC
66 TGGAGCTAGTTAAAGATAACAGATCTTGCCTTCCTGTGTTAATAGCGAAGC
* ** *
1560932 ATCTTGCTTTCCTGCGTCAACAGCGAAGCAGATCGAAAACAAAGCATTGCCTCCATCGGTTGTAG
1 ATCTTGCCTTCCTGCGTCAACAGCGAAGCAGATAAAAAACAAAGCATTGCCTCCATCGGTTGCAG
1560997 TGGAGCTAGTTAAAGATAACAGATCTTGCCTTCCTG
66 TGGAGCTAGTTAAAGATAACAGATCTTGCCTTCCTG
1561033 CATCGACAGT
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
116 88 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (116 bp):
ATCTTGCCTTCCTGCGTCAACAGCGAAGCAGATAAAAAACAAAGCATTGCCTCCATCGGTTGCAG
TGGAGCTAGTTAAAGATAACAGATCTTGCCTTCCTGTGTTAATAGCGAAGC
Found at i:1561214 original size:44 final size:44
Alignment explanation
Indices: 1561166--1561268 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 44
1561156 TCCCTAAGCA
1561166 GTAGTGGAGCAGA-CAGAAGAAATTA-ATCCTATCTCAT-TGAAGTT
1 GTAGTGGAGCAGATCA-AAGAAA-TAGATCCTATCTC-TCTGAAGTT
* * * *
1561210 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTT
1 GTAGTGGAGCAGATCAAAGAAATAGATCCTATCTCTCTGAAGTT
*
1561254 GTAGTAGAGCAGATC
1 GTAGTGGAGCAGATC
1561269 GCATCAAGTC
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
43 3 0.06
44 45 0.92
45 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (44 bp):
GTAGTGGAGCAGATCAAAGAAATAGATCCTATCTCTCTGAAGTT
Found at i:1571996 original size:22 final size:22
Alignment explanation
Indices: 1571954--1571997 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1571944 AATTACAAAT
**
1571954 TATTTGAGAATTTATGGTTTTA
1 TATTTGAGAATTTATACTTTTA
1571976 TATTTGAGAATTTATACTTTTA
1 TATTTGAGAATTTATACTTTTA
1571998 GAGGAGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (22 bp):
TATTTGAGAATTTATACTTTTA
Found at i:1573203 original size:3 final size:3
Alignment explanation
Indices: 1573195--1573226 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1573185 TATCTCGCTT
1573195 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1573227 TATTTTTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1579859 original size:8 final size:7
Alignment explanation
Indices: 1579771--1579857 Score: 50
Period size: 7 Copynumber: 11.9 Consensus size: 7
1579761 TATTTATACA
*
1579771 TTTAATT
1 TTTAAAT
1579778 TTTAATAT
1 TTTAA-AT
1579786 TTTAATAT
1 TTTAA-AT
**
1579794 TTTATCT
1 TTTAAAT
* *
1579801 TTCAGAT
1 TTTAAAT
1579808 TTTAAA-
1 TTTAAAT
* *
1579814 ATTCAAT
1 TTTAAAT
*
1579821 TTCAATATT
1 TTTAA-A-T
1579830 TTTGAAAT
1 TTT-AAAT
1579838 TTTAAAT
1 TTTAAAT
1579845 TTTAAAT
1 TTTAAAT
1579852 TTTAAA
1 TTTAAA
1579858 ATTAAAATAA
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
6 4 0.07
7 33 0.54
8 18 0.30
9 4 0.07
10 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (7 bp):
TTTAAAT
Found at i:1593164 original size:20 final size:21
Alignment explanation
Indices: 1593127--1593166 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1593117 ATGCATTGTT
*
1593127 TTATATTTTTTGTAATATATA
1 TTATATTATTTGTAATATATA
1593148 TTATATTATTT-TAATATAT
1 TTATATTATTTGTAATATAT
1593167 TATAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTATATTATTTGTAATATATA
Found at i:1594074 original size:3 final size:3
Alignment explanation
Indices: 1594066--1594100 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
1594056 GCTTGAAAAA
*
1594066 TGT TGT TGT TGC TGCT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TG-T TGT TGT TGT TGT TGT TGT T
1594101 CGAGTCCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.93
4 2 0.07
ACGTcount: A:0.00, C:0.06, G:0.31, T:0.63
Consensus pattern (3 bp):
TGT
Found at i:1598210 original size:44 final size:44
Alignment explanation
Indices: 1598093--1598267 Score: 148
Period size: 44 Copynumber: 4.1 Consensus size: 44
1598083 TAGGGGGACG
* *
1598093 AGATTTGTGGTTTTAGTCTGCTCCACTGCAA-TGTCAGGGAGATA
1 AGATCTGTGGTTTTAATCTGCTCCACTGCAACT-TCAGGGAGATA
* *** * *
1598137 AGA-C--TGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
1 AGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
*
1598178 AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
1 AGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * **
1598222 GGAT-TGT-TTTCTTATATCTGCTCCACTACTGCTT-AGGGAGATA
1 AGATCTGTGGTT-TTA-ATCTGCTCCACTGCAACTTCAGGGAGATA
1598265 AGA
1 AGA
1598268 CTTGATGCGA
Statistics
Matches: 103, Mismatches: 22, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
41 31 0.30
42 4 0.04
43 17 0.17
44 51 0.50
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (44 bp):
AGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
Found at i:1598437 original size:131 final size:131
Alignment explanation
Indices: 1598286--1599015 Score: 1181
Period size: 131 Copynumber: 5.5 Consensus size: 131
1598276 GATCTGCTGT
* * * * * *
1598286 ACTACTACTTAGGGAGATAAGATCTATAATCTTTAACCTATTCCACTGCTGCTTAGGAAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * * *
1598351 ACTGGTGGCTTAAATCAGCTTCCTACTATCTTAGGAAGATAAGATTTGTCGTCTTCGATCCGCTC
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCCGCTC
1598416 C
131 C
*
1598417 ACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
1598482 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCCGCTC
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCCGCTC
1598547 C
131 C
1598548 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
*
1598613 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTC
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCCGCTC
*
1598678 T
131 C
1598679 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * *
1598744 ACTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGTCGTCTTTGATCCGCTC
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCCGCTC
1598809 C
131 C
* * *
1598810 ACTTCTGCTTAGGGAGATAAGATCTACCATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGA
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGAT---
* *
1598875 ACTGGTAGCTGGTAGCTTAAATCTTCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGA
63 A--GG-A-CTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGA
*
1598940 TCTGCTCC
124 TCCGCTCC
* *
1598948 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTTCTCAGGGAGATAAG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
1599013 ACT
66 ACT
1599016 TGTAGTTTCA
Statistics
Matches: 561, Mismatches: 31, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
131 437 0.78
132 1 0.00
133 1 0.00
134 1 0.00
135 1 0.00
136 2 0.00
137 1 0.00
138 117 0.21
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCCGCTC
C
Found at i:1598981 original size:44 final size:44
Alignment explanation
Indices: 1598237--1599013 Score: 282
Period size: 44 Copynumber: 17.7 Consensus size: 44
1598227 GTTTTCTTAT
* * * *
1598237 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-CT--TG-ATGCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
** * * * *
1598277 ATCTGCTGTACTACTACTTAGGGAGATAAGATCTATAATCTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* ** * * * *** * *
1598321 ACCTATTCCACTGCTGCTTAGGAAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * *
1598364 ATCAGCTTCCTACTA-T-CTTAGGAAGATAAGATTTGTC-GTCTTCG
1 ATCTGC-TCC-ACTACTGCTTAGGGAGATAAGATCT-ACAGTCTTCA
* * *
1598408 ATCCGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * * *** * *
1598452 ACCTACTCCACTGCTGCTCAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * *
1598495 ATCTGCTTCCTACTA-T-CTT-GGGAAGATAAGAT-TCGCCGTCTTCG
1 ATCTGC-TCC-ACTACTGCTTAGGG-AGATAAGATCT-ACAGTCTTCA
* *
1598539 ATCCGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * * *** * *
1598583 ACCTACTCCACTGCTGCTCAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * *
1598626 ATCTGCTTCCTACTA-T-CTT-GGGAAGATAAGAT-TCGCCGTCTTCG
1 ATCTGC-TCC-ACTACTGCTTAGGG-AGATAAGATCT-ACAGTCTTCA
* *
1598670 ATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * * *** * *
1598714 ACCTACTCCACTGCTGCTCAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* **
1598757 ATCTGCTTCCTACTA-T-C-TCGGGAAGATAAGATTCGT-C-GTCTTTG
1 ATCTGC-TCC-ACTACTGCTTAGGG-AGATAAGA-TC-TACAGTCTTCA
* *
1598801 ATCCGCTCCACTTCTGCTTAGGGAGATAAGATCTACCA-TCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA-CAGTCTTCA
* * * * * *
1598845 ACCTACTCCACTGCTGCTTAGGGAGAT-AGAACTGGTAGCTGGTAGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAG-A-T-CTA-C-AGT--CTTCA
* * * *
1598895 ATCTTCTTCCTACTA-T-CTT-GGGAAGATAAGAT-TCGCCGTCTTCG
1 ATCTGC-TCC-ACTACTGCTTAGGG-AGATAAGATCT-ACAGTCTTCA
*
1598939 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
* * * * *
1598983 ACCTACTCCACTGCTTCTCAGGGAGATAAGA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA
1599014 CTTGTAGTTT
Statistics
Matches: 531, Mismatches: 149, Indels: 110
0.67 0.19 0.14
Matches are distributed among these distances:
40 28 0.05
41 2 0.00
42 29 0.05
43 103 0.19
44 301 0.57
45 30 0.06
46 6 0.01
47 2 0.00
48 1 0.00
49 4 0.01
50 16 0.03
51 6 0.01
52 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCA
Found at i:1599557 original size:45 final size:46
Alignment explanation
Indices: 1599504--1599591 Score: 133
Period size: 45 Copynumber: 1.9 Consensus size: 46
1599494 AGCTCGAAAT
*
1599504 GAATAAATTAATCAAGATAGCAAATTTTGTC-AGAATACAAAATGA
1 GAATAAATTAATCAAGATAGCAAATTTTGTCAAAAATACAAAATGA
* **
1599549 GAATAAATTAATCAAGATGGCGTATTTTGTCAAAAATACAAAA
1 GAATAAATTAATCAAGATAGCAAATTTTGTCAAAAATACAAAA
1599592 AATGAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
45 28 0.74
46 10 0.26
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.27
Consensus pattern (46 bp):
GAATAAATTAATCAAGATAGCAAATTTTGTCAAAAATACAAAATGA
Found at i:1600405 original size:12 final size:12
Alignment explanation
Indices: 1600353--1600422 Score: 58
Period size: 12 Copynumber: 5.9 Consensus size: 12
1600343 CCGGTAGAGT
1600353 TTTTTTGTTTT-
1 TTTTTTGTTTTG
*
1600364 TTATTTTCTTGTT-
1 TT-TTTTGTT-TTG
*
1600377 TTTTTTGGGTTTG
1 TTTTTT-GTTTTG
1600390 --TTTTGTTTTG
1 TTTTTTGTTTTG
1600400 TTTTTTGTTTTG
1 TTTTTTGTTTTG
*
1600412 CTTTTTGTTTT
1 TTTTTTGTTTT
1600423 TGCTTTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
10 5 0.10
11 6 0.12
12 32 0.67
13 5 0.10
ACGTcount: A:0.01, C:0.03, G:0.16, T:0.80
Consensus pattern (12 bp):
TTTTTTGTTTTG
Done.