Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 77 of 84
Found at i:16656019 original size:29 final size:28
Alignment explanation
Indices: 16655990--16656059 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 28
16655980 TTTTATTTAT
16655990 TTTATTTAAATTTAAATTAAATGTATTA
1 TTTATTTAAATTTAAATTAAATGTATTA
*
16656018 TTTA-TT---TTAAAATTAAATGTATTA
1 TTTATTTAAATTTAAATTAAATGTATTA
*
16656042 TTTATTTTAAAATTAAAT
1 TTTA-TTTAAATTTAAAT
16656060 GTATTATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
24 21 0.62
26 2 0.06
27 2 0.06
28 4 0.12
29 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (28 bp):
TTTATTTAAATTTAAATTAAATGTATTA
Found at i:16657060 original size:5 final size:5
Alignment explanation
Indices: 16657052--16657092 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
16657042 GTTTCCATTA
* * *
16657052 CTTTC CTTTA TTTTC CTTTC CTTTC CTTTC CTTTT CTTTC C
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC C
16657093 CTCCCCTCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.63
Consensus pattern (5 bp):
CTTTC
Found at i:16657066 original size:10 final size:10
Alignment explanation
Indices: 16657043--16657090 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
16657033 TTTTTTTTTG
*
16657043 TTTCCATTAC
1 TTTCCTTTAC
*
16657053 TTTCCTTTAT
1 TTTCCTTTAC
*
16657063 TTTCCTTTCC
1 TTTCCTTTAC
*
16657073 TTTCCTTTCC
1 TTTCCTTTAC
*
16657083 TTTTCTTT
1 TTTCCTTT
16657091 CCCTCCCCTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTCCTTTAC
Found at i:16657163 original size:30 final size:29
Alignment explanation
Indices: 16657127--16657199 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
16657117 TACTTTACAC
* *
16657127 CCAAATAAATCTTTAAAGTTTAATTTATAT
1 CCAAATAAA-CTTTAAACTCTAATTTATAT
* * *
16657157 CCAAATAAGCCTTTAACCTCTAATTTTTAT
1 CCAAATAA-ACTTTAAACTCTAATTTATAT
*
16657187 CTAAATAAACTTT
1 CCAAATAAACTTT
16657200 TAAAATAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
29 4 0.11
30 31 0.89
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.41
Consensus pattern (29 bp):
CCAAATAAACTTTAAACTCTAATTTATAT
Found at i:16657494 original size:14 final size:15
Alignment explanation
Indices: 16657463--16657495 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16657453 TGCGTAAACT
*
16657463 TTTTCAAATCCATAA
1 TTTTCAAATACATAA
16657478 TTTTCAAATAC-TAA
1 TTTTCAAATACATAA
16657492 TTTT
1 TTTT
16657496 AATAACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTCAAATACATAA
Found at i:16660616 original size:30 final size:30
Alignment explanation
Indices: 16660551--16660638 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
16660541 AGCTTTTCAC
* * * *
16660551 CTTTATTTTACATCCAAATAAATCC-TTAAA
1 CTTTAATTTATATCTAAATAAA-CCTTTAGA
* *
16660581 TTTTAATTTATAT-TCAAATAAGCCTTTAGA
1 CTTTAATTTATATCT-AAATAAACCTTTAGA
*
16660611 CTTTAATTTGTATCTAAATAAACCTTTA
1 CTTTAATTTATATCTAAATAAACCTTTA
16660639 ATATAAATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
29 2 0.04
30 43 0.93
31 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (30 bp):
CTTTAATTTATATCTAAATAAACCTTTAGA
Found at i:16661553 original size:25 final size:26
Alignment explanation
Indices: 16661519--16661571 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
16661509 AATTTGTTTT
*
16661519 TTAATATTGAGTT-TTTTATTAAAAA
1 TTAATATTGAATTATTTTATTAAAAA
* * *
16661544 TTAATGTTGAATTATTTTCTTGAAAA
1 TTAATATTGAATTATTTTATTAAAAA
16661570 TT
1 TT
16661572 TTCATAATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (26 bp):
TTAATATTGAATTATTTTATTAAAAA
Found at i:16662296 original size:208 final size:208
Alignment explanation
Indices: 16661938--16662356 Score: 829
Period size: 208 Copynumber: 2.0 Consensus size: 208
16661928 AGGCTAATAT
16661938 ATGCAGGGCAACCAATGTCGATTTTTTGCTTAGAATGATAAACTAATTGAGGATGAACATATGAA
1 ATGCAGGGCAACCAATGTCGATTTTTTGCTTAGAATGATAAACTAATTGAGGATGAACATATGAA
*
16662003 ATTGTGGATTGTTGATATAAGGGATACCAATAGAGCTTTGAAGATGGAGAATTCATTATTAAACG
66 ATTGTGGATTGTTGATATAAGGGATACCAATAGAGCTTTGAAGATGAAGAATTCATTATTAAACG
16662068 ATGAGAACAGAGCATTGAGAAGAATTAATGCTAAGTTGAAGAGTGAAAATGCTTGTAACAAAATA
131 ATGAGAACAGAGCATTGAGAAGAATTAATGCTAAGTTGAAGAGTGAAAATGCTTGTAACAAAATA
16662133 ATCATTAACATTG
196 ATCATTAACATTG
16662146 ATGCAGGGCAACCAATGTCGATTTTTTGCTTAGAATGATAAACTAATTGAGGATGAACATATGAA
1 ATGCAGGGCAACCAATGTCGATTTTTTGCTTAGAATGATAAACTAATTGAGGATGAACATATGAA
16662211 ATTGTGGATTGTTGATATAAGGGATACCAATAGAGCTTTGAAGATGAAGAATTCATTATTAAACG
66 ATTGTGGATTGTTGATATAAGGGATACCAATAGAGCTTTGAAGATGAAGAATTCATTATTAAACG
16662276 ATGAGAACAGAGCATTGAGAAGAATTAATGCTAAGTTGAAGAGTGAAAATGCTTGTAACAAAATA
131 ATGAGAACAGAGCATTGAGAAGAATTAATGCTAAGTTGAAGAGTGAAAATGCTTGTAACAAAATA
16662341 ATCATTAACATTG
196 ATCATTAACATTG
16662354 ATG
1 ATG
16662357 AGTTACTTAA
Statistics
Matches: 210, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
208 210 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.29
Consensus pattern (208 bp):
ATGCAGGGCAACCAATGTCGATTTTTTGCTTAGAATGATAAACTAATTGAGGATGAACATATGAA
ATTGTGGATTGTTGATATAAGGGATACCAATAGAGCTTTGAAGATGAAGAATTCATTATTAAACG
ATGAGAACAGAGCATTGAGAAGAATTAATGCTAAGTTGAAGAGTGAAAATGCTTGTAACAAAATA
ATCATTAACATTG
Found at i:16662702 original size:26 final size:26
Alignment explanation
Indices: 16662657--16662717 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
16662647 TTTAATGTTA
16662657 TATGAATGAATGATTAATTAATTATG
1 TATGAATGAATGATTAATTAATTATG
*
16662683 TATGAATGAATTATGT-ATTAATTATG
1 TATGAATGAATGAT-TAATTAATTATG
16662709 TATGAATGA
1 TATGAATGA
16662718 TGTATTGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 32 0.97
27 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (26 bp):
TATGAATGAATGATTAATTAATTATG
Found at i:16663952 original size:32 final size:32
Alignment explanation
Indices: 16663915--16663976 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
16663905 CATTAAGATG
16663915 TATTTAAAAAATAGGTTAATGCCATGAATATA
1 TATTTAAAAAATAGGTTAATGCCATGAATATA
*
16663947 TATTTAAAAAATAGGTTAATGTCATGAATA
1 TATTTAAAAAATAGGTTAATGCCATGAATA
16663977 ACCTTAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (32 bp):
TATTTAAAAAATAGGTTAATGCCATGAATATA
Found at i:16664605 original size:28 final size:25
Alignment explanation
Indices: 16664574--16664631 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
16664564 ACAATTTTCT
16664574 AAAAATTAAAAAATTCATAAAATCATAAA
1 AAAAATT-AAAAATTC--AAAAT-ATAAA
*
16664603 AAAAATTTAAAATTCAAAATATAAA
1 AAAAATTAAAAATTCAAAATATAAA
16664628 AAAA
1 AAAA
16664632 TTCCAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 9 0.32
26 5 0.18
28 7 0.25
29 7 0.25
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (25 bp):
AAAAATTAAAAATTCAAAATATAAA
Found at i:16665361 original size:21 final size:20
Alignment explanation
Indices: 16665337--16665388 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
16665327 AATTTTAGAT
*
16665337 TTTTTGAAATTTTTTGTATTC
1 TTTTTAAAATTTTTT-TATTC
16665358 TTTTTAAAATTTTTTTA-T-
1 TTTTTAAAATTTTTTTATTC
*
16665376 TTTTAAAAATTTT
1 TTTTTAAAATTTT
16665389 GGGATTCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 12 0.41
19 1 0.03
20 2 0.07
21 14 0.48
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTAAAATTTTTTTATTC
Found at i:16665504 original size:24 final size:25
Alignment explanation
Indices: 16665463--16665509 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
16665453 TTTTTCATCG
16665463 ATTTTAGTTTTTTAGGAAATTTTAA
1 ATTTTAGTTTTTTAGGAAATTTTAA
*
16665488 ATTTTA-TTTTTTTGGAAATTTT
1 ATTTTAGTTTTTTAGGAAATTTT
16665510 GGGATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.62
Consensus pattern (25 bp):
ATTTTAGTTTTTTAGGAAATTTTAA
Found at i:16665632 original size:9 final size:9
Alignment explanation
Indices: 16665620--16665767 Score: 72
Period size: 9 Copynumber: 16.6 Consensus size: 9
16665610 ATATTTTCCC
*
16665620 TTTTTCAAT
1 TTTTTAAAT
16665629 TTTTTAAAT
1 TTTTTAAAT
**
16665638 TTTAAAAAT
1 TTTTTAAAT
* *
16665647 TGTTGAAAT
1 TTTTTAAAT
*
16665656 TTGTTAAA-
1 TTTTTAAAT
*
16665664 TTTTGAGAAT
1 TTTTTA-AAT
* *
16665674 CTTTTCAAT
1 TTTTTAAAT
*
16665683 TTTTCAAAT
1 TTTTTAAAT
16665692 TTTTGATAAAT
1 TTTT--TAAAT
* *
16665703 TTTAT-GAT
1 TTTTTAAAT
*
16665711 TTTTT-TAT
1 TTTTTAAAT
*
16665719 TTTTT--AG
1 TTTTTAAAT
16665726 TTTTTAAAT
1 TTTTTAAAT
* *
16665735 ATTTTGAATT
1 -TTTTTAAAT
16665745 TTTTTAAAT
1 TTTTTAAAT
*
16665754 TTTTAAAAT
1 TTTTTAAAT
16665763 TTTTT
1 TTTTT
16665768 CGAATTTTTG
Statistics
Matches: 102, Mismatches: 30, Indels: 14
0.70 0.21 0.10
Matches are distributed among these distances:
7 6 0.06
8 17 0.17
9 62 0.61
10 10 0.10
11 7 0.07
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:16665750 original size:19 final size:19
Alignment explanation
Indices: 16665726--16665767 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
16665716 TATTTTTTAG
*
16665726 TTTTTAAATATTTT-GAATT
1 TTTTTAAAT-TTTTAAAATT
16665745 TTTTTAAATTTTTAAAATT
1 TTTTTAAATTTTTAAAATT
16665764 TTTT
1 TTTT
16665768 CGAATTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTAAATTTTTAAAATT
Found at i:16668248 original size:18 final size:18
Alignment explanation
Indices: 16668220--16668259 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16668210 CTTTTTCCCA
16668220 AAAAAAGAAAAAGAAAAGG
1 AAAAAAGAAAAAGAAAA-G
*
16668239 AAAAAA-AAAAAGTAAAG
1 AAAAAAGAAAAAGAAAAG
16668256 AAAA
1 AAAA
16668260 GAAGGAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAAAAGAAAAG
Found at i:16674670 original size:13 final size:13
Alignment explanation
Indices: 16674650--16674684 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
16674640 ATGACAATCT
16674650 AAAATATAATATA
1 AAAATATAATATA
*
16674663 ATAATATAATATA
1 AAAATATAATATA
16674676 AAAATATAA
1 AAAATATAA
16674685 AAATAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATATAATATA
Found at i:16674802 original size:26 final size:28
Alignment explanation
Indices: 16674755--16674807 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
16674745 TATTTATATA
*
16674755 TTTATATTAATATAAATCATAAATAATT
1 TTTATATTAAAATAAATCATAAATAATT
*
16674783 TTTATA-TAAAATATAT-ATAAATAAT
1 TTTATATTAAAATAAATCATAAATAAT
16674808 AAATTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 8 0.35
28 6 0.26
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
TTTATATTAAAATAAATCATAAATAATT
Found at i:16684156 original size:19 final size:20
Alignment explanation
Indices: 16684117--16684156 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16684107 TGCGAGACTT
* *
16684117 AGCTATTTAGTATTTTTAAA
1 AGCTATTTAGAATTTTAAAA
16684137 AGCTATTT-GAATTTTAAAA
1 AGCTATTTAGAATTTTAAAA
16684156 A
1 A
16684157 CCTAGTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (20 bp):
AGCTATTTAGAATTTTAAAA
Found at i:16696129 original size:24 final size:24
Alignment explanation
Indices: 16696102--16696152 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
16696092 ATATTAATTT
16696102 AATAAAAATAATAAATATAACACA
1 AATAAAAATAATAAATATAACACA
*
16696126 AATAAAAATAATAACTATAACACA
1 AATAAAAATAATAAATATAACACA
16696150 AAT
1 AAT
16696153 GATAACATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.22
Consensus pattern (24 bp):
AATAAAAATAATAAATATAACACA
Found at i:16700795 original size:314 final size:313
Alignment explanation
Indices: 16700177--16700797 Score: 854
Period size: 313 Copynumber: 2.0 Consensus size: 313
16700167 AATGAAGCAC
* * *
16700177 AACATCAATATAAGATAACACAAACAAAAAAATTCATAGGCAAAGTGTTGAAAACTACTTAATGG
1 AACATCAATATAAGACAACACAAACAAAAAAATTCAAAGGCAAAATGTTGAAAACTACTTAATGG
* * * * *
16700242 ACACAAACTAATATTAAAAAAACAAGCATGCAATACATTTAAAGCCCAACAGCTTTAAATTGAAT
66 ACACAAACTAATAATAAAAAAACAAGCATACAACACATGTAAAGCCCAACAGCTTTAAATTGAAC
* *
16700307 TTCACAGGAACATCCATTGCAGCATAAAGTACATTCATAAGAGGTTAAGTTTGAATTTGATCCTT
131 TTCACAGGAACATCCATTACAGCATAAAGTACATTCATAAGAGGTTAAGTTTGAATTTGATCATT
* *
16700372 CCACTAAATCAATTCAGCGATTTTGGTTCTCTATCCCAATTTTAATGAATTTAATCCCTTTACTT
196 CCACTAAATCAATTCAGCGATTTTAGTTCTCTATCCCAATTTTAATGAATTTAATCCCTTAACTT
*
16700437 TTATTAAAAGTCAATTTAAGGATAATTGATAACAATATTAAAATTTTGACATT
261 TTATTAAAAGTCAATTTAAGGAAAATTGATAACAATATTAAAATTTTGACATT
* * *
16700490 AACATCAATATAAGACAACACAAACAAAAAAATTCAAATGTAAAATGTTGAAAATTACTTAATGG
1 AACATCAATATAAGACAACACAAACAAAAAAATTCAAAGGCAAAATGTTGAAAACTACTTAATGG
* * * * * * *
16700555 ACACAAACTAATAATAACAAAACTAGTATACAACACATGTAATA-TCCAACATCTTTTAATTGAC
66 ACACAAACTAATAATAAAAAAACAAGCATACAACACATGTAA-AGCCCAACAGCTTTAAATTGAA
* *
16700619 CTTCA-ATGGAACATCCATTACTA-CATAGAGTATATTCATAAGAGGTTGAAGTTTGAATTTGAT
130 CTTCACA-GGAACATCCATTAC-AGCATAAAGTACATTCATAAGAGGTT-AAGTTTGAATTTGAT
** ** * * *
16700682 CATTCCACTATTTCAATTTGGTGATTTTAGTTCTCTATCCTAATTTTAATGAATTTGATCCCTTA
192 CATTCCACTAAATCAATTCAGCGATTTTAGTTCTCTATCCCAATTTTAATGAATTTAATCCCTTA
** *
16700747 ACTTTTATTAAAAGTTGATTTAAGGAAAATTGATAACGATGA-TAAAATTTT
257 ACTTTTATTAAAAGTCAATTTAAGGAAAATTGATAACAAT-ATTAAAATTTT
16700798 CCCTTTTACT
Statistics
Matches: 268, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
312 1 0.00
313 149 0.56
314 117 0.44
315 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (313 bp):
AACATCAATATAAGACAACACAAACAAAAAAATTCAAAGGCAAAATGTTGAAAACTACTTAATGG
ACACAAACTAATAATAAAAAAACAAGCATACAACACATGTAAAGCCCAACAGCTTTAAATTGAAC
TTCACAGGAACATCCATTACAGCATAAAGTACATTCATAAGAGGTTAAGTTTGAATTTGATCATT
CCACTAAATCAATTCAGCGATTTTAGTTCTCTATCCCAATTTTAATGAATTTAATCCCTTAACTT
TTATTAAAAGTCAATTTAAGGAAAATTGATAACAATATTAAAATTTTGACATT
Found at i:16701024 original size:75 final size:77
Alignment explanation
Indices: 16700873--16701023 Score: 245
Period size: 74 Copynumber: 2.0 Consensus size: 77
16700863 GCTACATGGC
16700873 ACATATCAGTCTAAAAAAACCATAATTAATTTTTTTGTTAATTCTAAAAAAATAGTTTTTATTAA
1 ACATATCAGTCTAAAAAAACCATAATTAATTTTTTTGTTAATTCTAAAAAAATAGTTTTTATTAA
16700938 AAATAAATTTTT
66 AAATAAATTTTT
* * *
16700950 ACATATCAGTCT-AAAAAATCATAATTAA-TTTTTTGTTAATT-TTAAAAAATATTTTTTATTAA
1 ACATATCAGTCTAAAAAAACCATAATTAATTTTTTTGTTAATTCTAAAAAAATAGTTTTTATTAA
*
16701012 AAATAATTTTTT
66 AAATAAATTTTT
16701024 TGGACTAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
74 30 0.43
75 13 0.19
76 15 0.21
77 12 0.17
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (77 bp):
ACATATCAGTCTAAAAAAACCATAATTAATTTTTTTGTTAATTCTAAAAAAATAGTTTTTATTAA
AAATAAATTTTT
Found at i:16705865 original size:15 final size:15
Alignment explanation
Indices: 16705845--16705875 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16705835 TTGATTCATC
16705845 AATTTTTTTATTTTT
1 AATTTTTTTATTTTT
16705860 AATTTTTTTATTTTT
1 AATTTTTTTATTTTT
16705875 A
1 A
16705876 TATATTATTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
AATTTTTTTATTTTT
Found at i:16706576 original size:24 final size:24
Alignment explanation
Indices: 16706517--16706576 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
16706507 TTTTTTTTAC
* *
16706517 TTTTTTTAAAAATCATATATTTAT
1 TTTTTTTAAAAATCATACATTGAT
*
16706541 TTTTTTT-TAAATCA-ACATTCGAT
1 TTTTTTTAAAAATCATACATT-GAT
*
16706564 TTTTTTTAGAAAT
1 TTTTTTTAAAAAT
16706577 TTTTCATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 4 0.13
23 15 0.50
24 11 0.37
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (24 bp):
TTTTTTTAAAAATCATACATTGAT
Found at i:16706724 original size:22 final size:24
Alignment explanation
Indices: 16706688--16706735 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
16706678 AAATTTCTAG
16706688 ATTTTTAAAATATTAAA-TTTAAA
1 ATTTTTAAAATATTAAATTTTAAA
*
16706711 ATTTTTAATA-ATTAAATTTTAAA
1 ATTTTTAAAATATTAAATTTTAAA
16706734 AT
1 AT
16706736 CAAATTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTTTAAAATATTAAATTTTAAA
Found at i:16706866 original size:23 final size:24
Alignment explanation
Indices: 16706840--16706893 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
16706830 TTTATTTTCT
16706840 AAATTTTTAA-TAAAGAATATAAA
1 AAATTTTTAAGTAAAGAATATAAA
* * * *
16706863 AAATTTATAAGTAACGTATATAGA
1 AAATTTTTAAGTAAAGAATATAAA
16706887 AAATTTT
1 AAATTTT
16706894 ATACAATTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (24 bp):
AAATTTTTAAGTAAAGAATATAAA
Found at i:16707122 original size:17 final size:17
Alignment explanation
Indices: 16707100--16707152 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
16707090 TATGATGTAA
* *
16707100 AAAAATGAAAATATTTT
1 AAAAATGAAAAGATTAT
*
16707117 AAAAATTAAAAAGATTAT
1 AAAAA-TGAAAAGATTAT
16707135 AAAATATGAAAAAGATTA
1 AAAA-ATG-AAAAGATTA
16707153 ATTTTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.17
18 14 0.48
19 10 0.34
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (17 bp):
AAAAATGAAAAGATTAT
Found at i:16719952 original size:22 final size:21
Alignment explanation
Indices: 16719927--16719974 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
16719917 TTTTTTTATT
*
16719927 TTATT-AAATTTATATATAATTA
1 TTATTAAAATTT-TAAATAA-TA
16719949 TTATTAAAATTTTAAATAATA
1 TTATTAAAATTTTAAATAATA
16719970 TTATT
1 TTATT
16719975 TTTATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 11 0.46
23 6 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATTAAAATTTTAAATAATA
Found at i:16720187 original size:12 final size:12
Alignment explanation
Indices: 16720162--16720210 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
16720152 TAAATTAAAT
16720162 TATTTATATATA
1 TATTTATATATA
16720174 TATTGTATAT-TA
1 TATT-TATATATA
*
16720186 TATTTATTTAT-
1 TATTTATATATA
*
16720197 TA-TAATATATA
1 TATTTATATATA
16720208 TAT
1 TAT
16720211 AATATAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
10 6 0.20
11 8 0.27
12 11 0.37
13 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTTATATATA
Found at i:16720188 original size:18 final size:18
Alignment explanation
Indices: 16720160--16720210 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 18
16720150 ATTAAATTAA
16720160 ATTATTTATATATATATTGT
1 ATTA-TTATATATATATT-T
16720180 A-TATTATAT-T-TATTT
1 ATTATTATATATATATTT
*
16720195 ATTATAATATATATAT
1 ATTATTATATATATAT
16720211 AATATAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
15 2 0.07
16 11 0.41
17 2 0.07
18 9 0.33
19 2 0.07
20 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTATTATATATATATTT
Found at i:16726132 original size:23 final size:23
Alignment explanation
Indices: 16726087--16726132 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
16726077 GTTAATAGTT
* *
16726087 AAAGAAGATTTCATGAGAAATTA
1 AAAGAAAATTTCATCAGAAATTA
16726110 AAAGAAAATTTCA-CAGAATATTA
1 AAAGAAAATTTCATCAGAA-ATTA
16726133 TTTTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.54, C:0.07, G:0.13, T:0.26
Consensus pattern (23 bp):
AAAGAAAATTTCATCAGAAATTA
Found at i:16727486 original size:88 final size:88
Alignment explanation
Indices: 16727337--16727511 Score: 314
Period size: 88 Copynumber: 2.0 Consensus size: 88
16727327 CATAAGCTAG
* *
16727337 GACACCTTGGAAAAGAATGTATTTTAAGTATTTTAACTAATATAACAAATCATTAGTTACTAAAA
1 GACACCGTGGAAAAGAATATATTTTAAGTATTTTAACTAATATAACAAATCATTAGTTACTAAAA
16727402 TTCTACAAAATTCCCATGCAAAT
66 TTCTACAAAATTCCCATGCAAAT
* *
16727425 GACACCGTGGAAAAGAATATATTTTAGGTATTTTAACTAATTTAACAAATCATTAGTTACTAAAA
1 GACACCGTGGAAAAGAATATATTTTAAGTATTTTAACTAATATAACAAATCATTAGTTACTAAAA
16727490 TTCTACAAAATTCCCATGCAAA
66 TTCTACAAAATTCCCATGCAAA
16727512 AGCATATATC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (88 bp):
GACACCGTGGAAAAGAATATATTTTAAGTATTTTAACTAATATAACAAATCATTAGTTACTAAAA
TTCTACAAAATTCCCATGCAAAT
Found at i:16729800 original size:3 final size:3
Alignment explanation
Indices: 16729794--16729819 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16729784 AAAAAAAACC
16729794 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
16729820 TTAGGGGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16730436 original size:33 final size:32
Alignment explanation
Indices: 16730364--16730428 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 32
16730354 TCAAAATTTT
16730364 ATTTTTGAGAATGCAAAAATATTGTCTAAAATAA
1 ATTTTTGAGAATGCAAAAATATTG--TAAAATAA
16730398 ATTTTTGAGAATGCAATATAATATTG-AAAAT
1 ATTTTTGAGAATGCAA-A-AATATTGTAAAAT
16730429 TCATTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
33 5 0.17
34 16 0.55
35 1 0.03
36 7 0.24
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (32 bp):
ATTTTTGAGAATGCAAAAATATTGTAAAATAA
Found at i:16730484 original size:24 final size:25
Alignment explanation
Indices: 16730439--16730486 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
16730429 TCATTTTTAA
*
16730439 AAAATACATAAATACATGTAATTTT
1 AAAATAAATAAATACATGTAATTTT
*
16730464 AAAATAAAT-AATACATTTAATTT
1 AAAATAAATAAATACATGTAATTT
16730487 AAATTTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (25 bp):
AAAATAAATAAATACATGTAATTTT
Found at i:16731465 original size:45 final size:46
Alignment explanation
Indices: 16731400--16731491 Score: 150
Period size: 45 Copynumber: 2.0 Consensus size: 46
16731390 ATTTGGCTCT
*
16731400 TAAAAGAATTGTAATTAAGTACAAGAACTTCTATTTCATAAAATAA
1 TAAAAGAAATGTAATTAAGTACAAGAACTTCTATTTCATAAAATAA
* *
16731446 TAAAA-AAATGTAATTAAGTACGAGTACTTCTATTTCATAAAATAA
1 TAAAAGAAATGTAATTAAGTACAAGAACTTCTATTTCATAAAATAA
16731491 T
1 T
16731492 TTAACTCGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
45 38 0.88
46 5 0.12
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (46 bp):
TAAAAGAAATGTAATTAAGTACAAGAACTTCTATTTCATAAAATAA
Found at i:16732690 original size:25 final size:26
Alignment explanation
Indices: 16732653--16732704 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
16732643 TTTAAATTTT
*
16732653 TTTCTTTGTTTTTCTACTTTTA-AAA
1 TTTCTTTGTTTTTCTAATTTTATAAA
*
16732678 TTTCTTT-TATTTTTTAATTTTATAAA
1 TTTCTTTGT-TTTTCTAATTTTATAAA
16732704 T
1 T
16732705 AAAATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 18 0.78
26 4 0.17
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTCTTTGTTTTTCTAATTTTATAAA
Found at i:16733138 original size:22 final size:22
Alignment explanation
Indices: 16733112--16733296 Score: 113
Period size: 22 Copynumber: 8.5 Consensus size: 22
16733102 TTGTTATTAA
16733112 TAATATAATAATATTTATTT-T
1 TAATATAATAATATTTATTTAT
*
16733133 GTAATACAATAATATTTATTTAT
1 -TAATATAATAATATTTATTTAT
* **
16733156 TAATATATTATTTATAAATATTATAT
1 TAATATA--A-TAATATTTATT-TAT
16733182 TAATA-AATAATATGTTATTTAT
1 TAATATAATAATAT-TTATTTAT
* * * *
16733204 TAATACATTATTAATTATTTATT
1 TAATATAATAATATTTATTTA-T
* *
16733227 TAATAAATATAATA-ATATTTAT
1 TAATATA-ATAATATTTATTTAT
* *
16733249 T-A-AT-ATAATATTTATATAA
1 TAATATAATAATATTTATTTAT
16733268 TAA-A-AATAATA--T-TTTAT
1 TAATATAATAATATTTATTTAT
16733285 TAATATAATAAT
1 TAATATAATAAT
16733297 TATAGCGTCA
Statistics
Matches: 128, Mismatches: 21, Indels: 31
0.71 0.12 0.17
Matches are distributed among these distances:
17 6 0.05
18 8 0.06
19 12 0.09
20 9 0.07
21 1 0.01
22 46 0.36
23 24 0.19
24 5 0.04
25 9 0.07
26 8 0.06
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (22 bp):
TAATATAATAATATTTATTTAT
Found at i:16733168 original size:15 final size:15
Alignment explanation
Indices: 16733142--16733269 Score: 72
Period size: 15 Copynumber: 8.3 Consensus size: 15
16733132 TGTAATACAA
16733142 TAATAT-TTATTTAT
1 TAATATATTATTTAT
16733156 TAATATATTATTTA-
1 TAATATATTATTTAT
16733170 TAA-ATATTATATTAAT
1 TAATATATTAT-TT-AT
*
16733186 AAATAATATGTTATTTAT
1 ---TAATATATTATTTAT
*
16733204 TAATACATTA-TTA-
1 TAATATATTATTTAT
*
16733217 -ATTAT-TTATTTAAT
1 TAATATATTATTT-AT
*
16733231 AAATATAATAATATTTAT
1 TAATAT-AT--TATTTAT
*
16733249 TAATATAATATTTAT
1 TAATATATTATTTAT
16733264 ATAATA
1 -TAATA
16733270 AAAATAATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 32
0.69 0.06 0.25
Matches are distributed among these distances:
11 3 0.03
12 5 0.06
13 8 0.09
14 14 0.16
15 27 0.30
16 5 0.06
17 2 0.02
18 9 0.10
19 10 0.11
20 6 0.07
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (15 bp):
TAATATATTATTTAT
Found at i:16733182 original size:18 final size:18
Alignment explanation
Indices: 16733159--16733260 Score: 53
Period size: 18 Copynumber: 5.3 Consensus size: 18
16733149 TATTTATTAA
16733159 TATATTATTTATAAATAT
1 TATATTATTTATAAATAT
** *
16733177 TATATTAATAAATAATATGT
1 TATATT-ATTTATAA-ATAT
* *
16733197 TAT-TTATTAATACATTAT
1 TATATTATTTATA-AATAT
16733215 TAATTATTTATTTAATAAATAT
1 T-A-TA-TTATTT-ATAAATAT
* * *
16733237 AATAATATTTATTAATAT
1 TATATTATTTATAAATAT
*
16733255 AATATT
1 TATATT
16733261 TATATAATAA
Statistics
Matches: 64, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
18 27 0.42
19 15 0.23
20 9 0.14
21 1 0.02
22 9 0.14
23 3 0.05
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (18 bp):
TATATTATTTATAAATAT
Found at i:16733216 original size:33 final size:33
Alignment explanation
Indices: 16733156--16733218 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
16733146 ATTTATTTAT
*
16733156 TAATATATTATTTATAAATATTATATTAATAAA
1 TAATATATTATTTATAAATAATATATTAATAAA
* *
16733189 TAATATGTTATTTATTAATACAT-TATTAAT
1 TAATATATTATTTATAAATA-ATATATTAAT
16733219 TATTTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 25 0.96
34 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (33 bp):
TAATATATTATTTATAAATAATATATTAATAAA
Found at i:16733291 original size:36 final size:38
Alignment explanation
Indices: 16733219--16733300 Score: 123
Period size: 36 Copynumber: 2.2 Consensus size: 38
16733209 CATTATTAAT
* *
16733219 TATTTATTTAATAAATATAATAATATTTATTAATATAA
1 TATTTATATAATAAAAATAATAATATTTATTAATATAA
16733257 TATTTATATAATAAAAATAAT-AT-TTTATTAATATAA
1 TATTTATATAATAAAAATAATAATATTTATTAATATAA
*
16733293 TAATTATA
1 TATTTATA
16733301 GCGTCACTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 20 0.49
37 2 0.05
38 19 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (38 bp):
TATTTATATAATAAAAATAATAATATTTATTAATATAA
Found at i:16735658 original size:3 final size:3
Alignment explanation
Indices: 16735652--16735678 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16735642 AATCATCTAA
16735652 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
16735679 TTGCAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:16738094 original size:3 final size:3
Alignment explanation
Indices: 16738086--16738111 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16738076 AGCATGCTAA
16738086 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
16738112 CATACAACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:16745950 original size:12 final size:12
Alignment explanation
Indices: 16745933--16745967 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
16745923 TTGAAGAAGC
16745933 TGTTCTTTTTAT
1 TGTTCTTTTTAT
*
16745945 TGTTC-TTTTCT
1 TGTTCTTTTTAT
16745956 TGTTCTTTTTAT
1 TGTTCTTTTTAT
16745968 GTGGACTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.06, C:0.11, G:0.09, T:0.74
Consensus pattern (12 bp):
TGTTCTTTTTAT
Found at i:16749116 original size:19 final size:19
Alignment explanation
Indices: 16749092--16749153 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 19
16749082 TTCTAAATAT
16749092 TTATAATTTAAATATTATA
1 TTATAATTTAAATATTATA
*
16749111 TTATAAATT---T-TTAT-
1 TTATAATTTAAATATTATA
* *
16749125 TTAAAATTTAAATATCATA
1 TTATAATTTAAATATTATA
16749144 TTATACATTT
1 TTATA-ATTT
16749154 CATTATAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 11
0.67 0.10 0.23
Matches are distributed among these distances:
14 7 0.22
15 4 0.12
16 1 0.03
17 1 0.03
18 3 0.09
19 12 0.38
20 4 0.12
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATAATTTAAATATTATA
Found at i:16749133 original size:33 final size:33
Alignment explanation
Indices: 16749089--16749153 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
16749079 ATCTTCTAAA
* *
16749089 TATTTATAATTTAAATATTATATTATAAATTTT
1 TATTTAAAATTTAAATATCATATTATAAATTTT
*
16749122 TATTTAAAATTTAAATATCATATTATACATTT
1 TATTTAAAATTTAAATATCATATTATAAATTT
16749154 CATTATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (33 bp):
TATTTAAAATTTAAATATCATATTATAAATTTT
Found at i:16749173 original size:15 final size:15
Alignment explanation
Indices: 16749153--16749183 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16749143 ATTATACATT
*
16749153 TCATTATAATTTATA
1 TCATTATAATTCATA
16749168 TCATTATAATTCATA
1 TCATTATAATTCATA
16749183 T
1 T
16749184 GCTATTCGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (15 bp):
TCATTATAATTCATA
Found at i:16752274 original size:25 final size:25
Alignment explanation
Indices: 16752233--16752292 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
16752223 AATTCAATCG
16752233 AGCTCGAGCTGAAAGTTTCGAGTCA
1 AGCTCGAGCTGAAAGTTTCGAGTCA
* * *
16752258 AGCTCGAGTTGAGAGTTTCGATTCA
1 AGCTCGAGCTGAAAGTTTCGAGTCA
16752283 AGCTCGAGCT
1 AGCTCGAGCT
16752293 CGAGCTTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (25 bp):
AGCTCGAGCTGAAAGTTTCGAGTCA
Found at i:16754274 original size:15 final size:14
Alignment explanation
Indices: 16754248--16754286 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
16754238 CATATTGCTC
16754248 ATAATTATTATAAT
1 ATAATTATTATAAT
16754262 ATAATTAATTATAAT
1 ATAATT-ATTATAAT
16754277 CATGAATTAT
1 -AT-AATTAT
16754287 GTAAAATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 8 0.36
16 4 0.18
17 4 0.18
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (14 bp):
ATAATTATTATAAT
Found at i:16758263 original size:31 final size:31
Alignment explanation
Indices: 16758221--16758279 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
16758211 TAAAAGAACA
16758221 GAAGACAATTTCTCTCAAATGGGCATTAACG
1 GAAGACAATTTCTCTCAAATGGGCATTAACG
*
16758252 GAAGACGATTTCTCTCAAATGGGCATTA
1 GAAGACAATTTCTCTCAAATGGGCATTA
16758280 TTAGCTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (31 bp):
GAAGACAATTTCTCTCAAATGGGCATTAACG
Found at i:16767270 original size:2 final size:2
Alignment explanation
Indices: 16767263--16767288 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16767253 TATAGAAGTT
16767263 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
16767289 CATAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16769623 original size:256 final size:254
Alignment explanation
Indices: 16769141--16769741 Score: 902
Period size: 256 Copynumber: 2.3 Consensus size: 254
16769131 GGTAGTAGTA
* *
16769141 GTCACTCTAACTAAGCTCACACATAAACAATTTTCAGAAGAGGGCTTTTACTTTAGATAAAAGCA
1 GTCACTCTAACTAAGCTCATACATAAACAATTTTCAGAAG-GGGCTTTTACTTTACATAAAAGCA
*
16769206 CTATCATCATAGCAATAAACAACAAAATATCAATGCATCCATAAAGATTTGGATGTATCAGTTAA
65 CTATCATCATAGCAATAAACAACAAAATATCAATGCATCCATAAAGATTTGAATGTATCAGTTAA
* * **
16769271 TGTACTGTTTAAAAGGCACCTTATCCAGCCAAAAAAAAAAAAAGAATTGTCCTCCCTAAAATGTC
130 TGTACTGTCTAAAAGGCACCTTATCCAGCC--AAAAAAAAAAAGAATTATCCTCCCTAAAACATC
* *
16769336 AAGCCAATCTCTCCACCAGCTTTTCTGGTA-GTAGTAGCAGCAGCAGCAG-CCAAGAACTAAG
193 AAGCCAATCTCTCCACCACCTTTTCTGGTAGGTAATAGCAGCAGCAGCAGCCCAA-AACTAAG
* *
16769397 GTCACTCTAACTAAGCTCATACGTAAACAATTTTCAGAAGGGGCCTTTTTCTTTACATAAAAGCA
1 GTCACTCTAACTAAGCTCATACATAAACAATTTTCAGAAGGGG-CTTTTACTTTACATAAAAGCA
16769462 CTATCATCATAGCAATAAACAACAAAATATCAATGCATCCATAAAGATTTGAATGTATCAGTTAA
65 CTATCATCATAGCAATAAACAACAAAATATCAATGCATCCATAAAGATTTGAATGTATCAGTTAA
*
16769527 TGTACTGTCTAAAAGGCACCTTATCCAGCC-AAAAAAACAAGAATTATCCTCCCTAAAACATCAA
130 TGTACTGTCTAAAAGGCACCTTATCCAGCCAAAAAAAAAAAGAATTATCCTCCCTAAAACATCAA
*
16769591 GCCAATCTCTCCACCACCTTTTATGGTGGTAGTGGTAATAGCAGCAGCAGCAGCCCAAAACTAAG
195 GCCAATCTCTCCACCACC-TTT-T-CTGGTA--GGTAATAGCAGCAGCAGCAGCCCAAAACTAAG
* * * * * * *
16769656 ATTACTCTAACTAAGCTCATATACAAACAAATTTCAGAAGGTGGCTTTTCCTTTACCTAAAAGCA
1 GTCACTCTAACTAAGCTCATACATAAACAATTTTCAGAAGG-GGCTTTTACTTTACATAAAAGCA
16769721 CTATCATCATAGCAATAAACA
65 CTATCATCATAGCAATAAACA
16769742 GAGTGTGTAA
Statistics
Matches: 315, Mismatches: 21, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
253 47 0.15
254 3 0.01
255 4 0.01
256 155 0.49
259 100 0.32
260 6 0.02
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (254 bp):
GTCACTCTAACTAAGCTCATACATAAACAATTTTCAGAAGGGGCTTTTACTTTACATAAAAGCAC
TATCATCATAGCAATAAACAACAAAATATCAATGCATCCATAAAGATTTGAATGTATCAGTTAAT
GTACTGTCTAAAAGGCACCTTATCCAGCCAAAAAAAAAAAGAATTATCCTCCCTAAAACATCAAG
CCAATCTCTCCACCACCTTTTCTGGTAGGTAATAGCAGCAGCAGCAGCCCAAAACTAAG
Found at i:16776049 original size:101 final size:101
Alignment explanation
Indices: 16775928--16776126 Score: 380
Period size: 101 Copynumber: 2.0 Consensus size: 101
16775918 CTTACACTAT
* *
16775928 ATCCCATAAGCTAAAGAATTTAGTTGAAAATTAGTATAATTCAAAAGCTAAACAGTTAAATCAAG
1 ATCCCATAAACTAAACAATTTAGTTGAAAATTAGTATAATTCAAAAGCTAAACAGTTAAATCAAG
16775993 GTACCTGAGACATCAGACATGGTACCATGGTAGAAA
66 GTACCTGAGACATCAGACATGGTACCATGGTAGAAA
16776029 ATCCCATAAACTAAACAATTTAGTTGAAAATTAGTATAATTCAAAAGCTAAACAGTTAAATCAAG
1 ATCCCATAAACTAAACAATTTAGTTGAAAATTAGTATAATTCAAAAGCTAAACAGTTAAATCAAG
16776094 GTACCTGAGACATCAGACATGGTACCATGGTAG
66 GTACCTGAGACATCAGACATGGTACCATGGTAG
16776127 GTAACTAGGT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 96 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (101 bp):
ATCCCATAAACTAAACAATTTAGTTGAAAATTAGTATAATTCAAAAGCTAAACAGTTAAATCAAG
GTACCTGAGACATCAGACATGGTACCATGGTAGAAA
Found at i:16779452 original size:15 final size:15
Alignment explanation
Indices: 16779432--16779461 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16779422 AAAAGAAAAA
16779432 GCTTCATTCAAGAAC
1 GCTTCATTCAAGAAC
16779447 GCTTCATTCAAGAAC
1 GCTTCATTCAAGAAC
16779462 AATCATTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (15 bp):
GCTTCATTCAAGAAC
Found at i:16781816 original size:18 final size:18
Alignment explanation
Indices: 16781793--16781827 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16781783 ATGTAAAATT
16781793 GAATTTCTAAAGACAAAG
1 GAATTTCTAAAGACAAAG
* *
16781811 GAATTTTTAAATACAAA
1 GAATTTCTAAAGACAAA
16781828 AACTATAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (18 bp):
GAATTTCTAAAGACAAAG
Found at i:16783687 original size:63 final size:62
Alignment explanation
Indices: 16783567--16783705 Score: 151
Period size: 63 Copynumber: 2.2 Consensus size: 62
16783557 ATTATTTCTA
* * *
16783567 AGGGATGATTGAATGTATTTTTTGTCCAAATATGCCTTCAATACTCCATACAAAAAATTT-T
1 AGGGATTATTGAATGTAGTTTTTATCCAAATATGCCTTCAATACTCCATACAAAAAATTTAT
* *
16783628 GGAGGGATTATTGAATGT-GTTTTTATCC-AATAATGCCTTCAATAATTCCCT-CAACAAAATTT
1 --AGGGATTATTGAATGTAGTTTTTATCCAAAT-ATGCCTTCAAT-ACTCCATACAA-AAAATTT
16783690 AT
61 AT
16783692 ATGGGATTATTGAA
1 A-GGGATTATTGAA
16783706 GGCATTTTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
61 3 0.05
62 23 0.35
63 39 0.59
64 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (62 bp):
AGGGATTATTGAATGTAGTTTTTATCCAAATATGCCTTCAATACTCCATACAAAAAATTTAT
Found at i:16784059 original size:35 final size:35
Alignment explanation
Indices: 16783990--16784059 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
16783980 TATACATGTA
* * *
16783990 AAGTCAGTTATAGTTTTATACCCATAAAACATTTG
1 AAGTCAATTATAGGTTTATACCCAGAAAACATTTG
* * *
16784025 AAGTCAATTGTAGGTTTATACCTAGAAAATATTTG
1 AAGTCAATTATAGGTTTATACCCAGAAAACATTTG
16784060 GTTTATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (35 bp):
AAGTCAATTATAGGTTTATACCCAGAAAACATTTG
Found at i:16787956 original size:62 final size:60
Alignment explanation
Indices: 16787729--16787976 Score: 189
Period size: 62 Copynumber: 4.0 Consensus size: 60
16787719 TTAGAGGTAT
* * * *
16787729 TTTATGCCAAAAATACCTTCAAT-AATCTTGTCAAAAAATATTACGAGGATTATTAAAGGCA
1 TTTATGCAAAAAATACCTTCAATAAATCTT-TTAAAAAAT-TTAAGAGGATTATTGAAGGCA
* * * * *
16787790 TTTTAT-AAAAAAATACCTCCAATAATTTCTTTTAAAAATTTTCGAGAAGAGATTATTGAAGGCA
1 -TTTATGCAAAAAATACCTTCAATAA-ATCTTTTAAAAAATTT-AAG-AG-GATTATTGAAGGCA
* ** * * *
16787854 TTTTTAGTC-AAAAACGCCTTCAA-AAATCTCCTTATCAAAATTTAAGAGGATTATTGAAGGCG
1 TTTAT-G-CAAAAAATACCTTCAATAAATCT-TTTA-AAAAATTTAAGAGGATTATTGAAGGCA
* * *
16787916 TATTATGCAAAAAATACCTTCAATAAATTCTTTTAAAAAATTTGAGTGGATTAGTGAAGGC
1 T-TTATGCAAAAAATACCTTCAATAAA-TCTTTTAAAAAATTTAAGAGGATTATTGAAGGC
16787977 TTTCATCGTT
Statistics
Matches: 144, Mismatches: 28, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
61 17 0.12
62 63 0.44
63 24 0.17
64 23 0.16
65 17 0.12
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (60 bp):
TTTATGCAAAAAATACCTTCAATAAATCTTTTAAAAAATTTAAGAGGATTATTGAAGGCA
Found at i:16788471 original size:190 final size:189
Alignment explanation
Indices: 16788084--16788499 Score: 421
Period size: 190 Copynumber: 2.2 Consensus size: 189
16788074 GTATATTATG
* * *
16788084 CAAAAAA-AGCTTTCAATAAATTTTTTCAAAAAATTTGAGGGAATTAGTAAAGGTGTTTGTAGTA
1 CAAAAAATACCTTT-AATAAATTTTTTCAAAAAATTTAAAGGAATTAGTAAAGGTGTTTGTAGTA
** * * *
16788148 AAAAAATACCTACAATAATCTTCTCGTCAAAATTTAAAAGATTATCGACGGTATTTTTGATAGAA
65 AAAAAATACCTACAATAATCTAATCATCAAAATTTAAAAGATTATCGAAGCTATTTTTGATAGAA
* ** * *
16788213 ATCATCTTAACTAATATTTCTTTGATAGAAATGGATGGTATTATCGAAGGCATTTTCTGTA
130 ATCACCTTAACTAATATTTCCCTAATAAAAATGGA-GGTATTATCGAAGGCATTTTCTGTA
* * * * *
16788274 AAAAAAATACCTTTAATAAATTATTTCAAAAAATTTAAAAGG-ATTAGTGAATGTGTTTTTAGTA
1 CAAAAAATACCTTTAATAAATTTTTTCAAAAAATTT-AAAGGAATTAGTAAAGGTGTTTGTAGT-
** * * * *
16788338 AAAAAAATGTCTATAATAATCTAATCATCAAATTTTAAGGAGATTATTGAAAGCTATTTTTG-TA
64 AAAAAAATACCTACAATAATCTAATCATCAAAATTTAA-AAGATTATCG-AAGCTATTTTTGATA
* * * * * *
16788402 TAAATCACCTTCACTAATA-TTCACCTAATAAAAATGGA-GT-TTATTGAAGGTATTTTTTTTTA
127 GAAATCACCTTAACTAATATTTC-CCTAATAAAAATGGAGGTATTATCGAAGGCA-TTTTCTGTA
* * *
16788464 CAAAAAATGCCTTTAATAATTTTTTTAAAAAAATTT
1 CAAAAAATACCTTTAATAAATTTTTTCAAAAAATTT
16788500 GAGGGGTTAA
Statistics
Matches: 184, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
189 10 0.05
190 85 0.46
191 42 0.23
192 37 0.20
193 10 0.05
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (189 bp):
CAAAAAATACCTTTAATAAATTTTTTCAAAAAATTTAAAGGAATTAGTAAAGGTGTTTGTAGTAA
AAAAATACCTACAATAATCTAATCATCAAAATTTAAAAGATTATCGAAGCTATTTTTGATAGAAA
TCACCTTAACTAATATTTCCCTAATAAAAATGGAGGTATTATCGAAGGCATTTTCTGTA
Found at i:16796425 original size:32 final size:32
Alignment explanation
Indices: 16796360--16796437 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
16796350 TTGAACCTTG
* *
16796360 ATTTCTAATT-TTAATTGAGACTTTAATTTTTA
1 ATTT-TAATTGTTAATTAAGACTTTAATTGTTA
* * *
16796392 ATTTTGATTGTTAATTAAGATTTTGATTGTTA
1 ATTTTAATTGTTAATTAAGACTTTAATTGTTA
*
16796424 ATTTTAATTTTTAA
1 ATTTTAATTGTTAA
16796438 GTGGAATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 4 0.11
32 34 0.89
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.58
Consensus pattern (32 bp):
ATTTTAATTGTTAATTAAGACTTTAATTGTTA
Found at i:16796433 original size:19 final size:19
Alignment explanation
Indices: 16796382--16796472 Score: 78
Period size: 19 Copynumber: 4.7 Consensus size: 19
16796372 AATTGAGACT
16796382 TTAATTTTTAATTTTGATTG
1 TTAA-TTTTAATTTTGATTG
*
16796402 TTAA-TTAAGATTTTGATTG
1 TTAATTTTA-ATTTTGATTG
* *
16796421 TTAATTTTAATTTTTA-AG
1 TTAATTTTAATTTTGATTG
* * * *
16796439 TGGAATTTTGATATTGATTT
1 T-TAATTTTAATTTTGATTG
16796459 TTAATTTTAATTTT
1 TTAATTTTAATTTT
16796473 AGTTTTGATT
Statistics
Matches: 54, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
18 5 0.09
19 41 0.76
20 8 0.15
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (19 bp):
TTAATTTTAATTTTGATTG
Found at i:16797657 original size:42 final size:42
Alignment explanation
Indices: 16797605--16797698 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
16797595 ACTTTTTATA
* * *
16797605 TATTTTCATGGATTTAACTTAATTGTATGATTCATATATCCT
1 TATTTGCATGGATTTAACTTAATTGCATCATTCATATATCCT
*
16797647 TATTTGCATGGATTTAACTTAATTGCATCATTTATATATCCT
1 TATTTGCATGGATTTAACTTAATTGCATCATTCATATATCCT
16797689 TATTTGCATG
1 TATTTGCATG
16797699 ATTATTATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.49
Consensus pattern (42 bp):
TATTTGCATGGATTTAACTTAATTGCATCATTCATATATCCT
Found at i:16797672 original size:19 final size:19
Alignment explanation
Indices: 16797611--16797674 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
16797601 TATATATTTT
16797611 CATGGATTTAACTTAATTG
1 CATGGATTTAACTTAATTG
* *
16797630 TAT-GATTCATATATCCTTATTTG
1 CATGGATT--TA-A--CTTAATTG
16797653 CATGGATTTAACTTAATTG
1 CATGGATTTAACTTAATTG
16797672 CAT
1 CAT
16797675 CATTTATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
18 4 0.11
19 12 0.34
20 2 0.06
21 2 0.06
22 2 0.06
23 9 0.26
24 4 0.11
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (19 bp):
CATGGATTTAACTTAATTG
Found at i:16797707 original size:23 final size:22
Alignment explanation
Indices: 16797622--16797724 Score: 65
Period size: 23 Copynumber: 4.7 Consensus size: 22
16797612 ATGGATTTAA
* *
16797622 CTTAATTGTATGATTCATATATC
1 CTTAATTGCATGATT-TTATATC
*
16797645 CTTATTTGCATGGA-TTTA-A--
1 CTTAATTGCAT-GATTTTATATC
*
16797664 CTTAATTGCATCATTTATATATC
1 CTTAATTGCATGATTT-TATATC
*
16797687 CTTATTTGCATGATTATTATAT-
1 CTTAATTGCATGATT-TTATATC
*
16797709 ATTCAATTGCAT-ATTT
1 CTT-AATTGCATGATTT
16797725 ATTTACATAA
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
18 1 0.02
19 12 0.19
20 2 0.03
21 3 0.05
22 7 0.11
23 35 0.56
24 3 0.05
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.50
Consensus pattern (22 bp):
CTTAATTGCATGATTTTATATC
Found at i:16797745 original size:41 final size:41
Alignment explanation
Indices: 16797699--16797784 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
16797689 TATTTGCATG
16797699 ATTATTA-TATATTCAATTGCATATTTATTTACATAATT-TAT
1 ATTATTATTATATT--ATTGCATATTTATTTACATAATTATAT
* * *
16797740 ATTATTATTTGTATTATTGCATGTTTATTTACATTATTATAT
1 ATTATTA-TTATATTATTGCATATTTATTTACATAATTATAT
16797782 ATT
1 ATT
16797785 TAATTGCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
41 28 0.72
42 6 0.15
43 5 0.13
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.57
Consensus pattern (41 bp):
ATTATTATTATATTATTGCATATTTATTTACATAATTATAT
Found at i:16797776 original size:32 final size:32
Alignment explanation
Indices: 16797755--16797880 Score: 130
Period size: 32 Copynumber: 3.9 Consensus size: 32
16797745 TATTTGTATT
*
16797755 ATTGCATGTTTATTTACATTATTATATATTTA
1 ATTGCATATTTATTTACATTATTATATATTTA
* * *
16797787 ATTGCATATTTATTTGCATGATAATATATTTA
1 ATTGCATATTTATTTACATTATTATATATTTA
* * *
16797819 ATTGCA-ATTTGTAT-GATTATTAATATATTTA
1 ATTGCATATTTATTTACATTATT-ATATATTTA
* * *
16797850 ATTACATATTTATTTGCATGAGTTATATATT
1 ATTGCATATTTATTTACATTA-TTATATATT
16797881 ATTTGTATGA
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
30 4 0.05
31 20 0.26
32 40 0.53
33 10 0.13
34 2 0.03
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (32 bp):
ATTGCATATTTATTTACATTATTATATATTTA
Found at i:16797786 original size:20 final size:19
Alignment explanation
Indices: 16797719--16797799 Score: 56
Period size: 20 Copynumber: 4.1 Consensus size: 19
16797709 ATTCAATTGC
*
16797719 ATATTTATTTACATAATTT
1 ATATTTATTTACATTATTT
** *
16797738 ATATTATTATTTGTATTATTGC
1 ATA-T-TTATTTACATTATT-T
*
16797760 ATGTTTATTTACATTATTAT
1 ATATTTATTTACATTATT-T
* *
16797780 ATATTTAATTGCA-TATTT
1 ATATTTATTTACATTATTT
16797798 AT
1 AT
16797800 TTGCATGATA
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
18 3 0.06
19 7 0.15
20 23 0.49
21 12 0.26
22 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (19 bp):
ATATTTATTTACATTATTT
Found at i:16797880 original size:21 final size:20
Alignment explanation
Indices: 16797855--16797909 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
16797845 ATTTAATTAC
*
16797855 ATATTTATTTGCATGAGTTAT
1 ATATTTATTTGCATGA-TAAT
*
16797876 ATA-TTATTTGTATGATAAT
1 ATATTTATTTGCATGATAAT
*
16797895 ATATTTAATTGCATG
1 ATATTTATTTGCATG
16797910 TTTGCATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 6 0.21
20 20 0.69
21 3 0.10
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.51
Consensus pattern (20 bp):
ATATTTATTTGCATGATAAT
Found at i:16797982 original size:25 final size:25
Alignment explanation
Indices: 16797922--16797994 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
16797912 TGCATGAATA
* * *
16797922 TTAATATATTTACTTGCATGATT-A
1 TTAATATATTTATTTGTATGATTGC
* *
16797946 TT-TTATACTTATTTGTATGATTGC
1 TTAATATATTTATTTGTATGATTGC
* *
16797970 TTAATATATTTATGTGTGTGATTGC
1 TTAATATATTTATTTGTATGATTGC
16797995 ATGTTATTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
23 16 0.42
24 4 0.11
25 18 0.47
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (25 bp):
TTAATATATTTATTTGTATGATTGC
Found at i:16798017 original size:23 final size:24
Alignment explanation
Indices: 16797908--16798037 Score: 93
Period size: 24 Copynumber: 5.1 Consensus size: 24
16797898 TTTAATTGCA
*
16797908 TGTTTGCATGAATATTAATATATT
1 TGTTTGCATGATTATTAATATATT
** * *
16797932 TACTTGCATGATTATT-TTATACT
1 TGTTTGCATGATTATTAATATATT
* * *
16797955 TATTTGTATGATTGCTTAATATATTT
1 TGTTTGCATGATT-ATTAATATA-TT
16797981 ATGTGTGTG-ATTGCATGTTATTAATATATT
1 -TGT-T-TGCA-TG-A--TTATTAATATATT
16798011 TGTTTGCATGATTATTAATATATT
1 TGTTTGCATGATTATTAATATATT
16798035 TGT
1 TGT
16798038 ATGGTGTTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
23 16 0.19
24 31 0.37
25 4 0.05
26 2 0.02
27 6 0.07
28 4 0.05
29 7 0.08
30 3 0.04
31 8 0.10
32 2 0.02
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (24 bp):
TGTTTGCATGATTATTAATATATT
Found at i:16798084 original size:18 final size:18
Alignment explanation
Indices: 16798046--16798084 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
16798036 GTATGGTGTT
*
16798046 TTATATTTAATTACATGA
1 TTATATTTAATTACATAA
*
16798064 TTATATTTAATTGCATAA
1 TTATATTTAATTACATAA
16798082 TTA
1 TTA
16798085 CTAATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (18 bp):
TTATATTTAATTACATAA
Found at i:16798194 original size:69 final size:69
Alignment explanation
Indices: 16798060--16798194 Score: 202
Period size: 69 Copynumber: 2.0 Consensus size: 69
16798050 ATTTAATTAC
**
16798060 ATGATTATATTTAATTGCATAATTACTAATATATTTGCATGTTTTTATATTTATTGTGTGCATTA
1 ATGATTATATTTAATTGCATAATTACTAATATATTTGCATGTTTTTATATTTATTGCATGCATTA
16798125 TTGT
66 TTGT
* *
16798129 ATGATTATATTTAATTGTATAATTACTAATATATTTGTATGGTATTTTATA-TTATTGCATG-AT
1 ATGATTATATTTAATTGCATAATTACTAATATATTTGCAT-GT-TTTTATATTTATTGCATGCAT
16798192 TAT
64 TAT
16798195 ATATTTGCAT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
69 43 0.72
70 10 0.17
71 7 0.12
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.53
Consensus pattern (69 bp):
ATGATTATATTTAATTGCATAATTACTAATATATTTGCATGTTTTTATATTTATTGCATGCATTA
TTGT
Found at i:16798196 original size:16 final size:16
Alignment explanation
Indices: 16798183--16798245 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
16798173 TTTTATATTA
16798183 TTGCATGATTATATAT
1 TTGCATGATTATATAT
16798199 TTGCATGAGTGGTTATTAATATAT
1 TTGCATGA----TTA-T-A--TAT
16798223 TTGCATGATTATATAT
1 TTGCATGATTATATAT
16798239 TTGCATG
1 TTGCATG
16798246 GATGATAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
16 18 0.46
18 1 0.03
19 1 0.03
20 6 0.15
21 1 0.03
22 1 0.03
24 11 0.28
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (16 bp):
TTGCATGATTATATAT
Found at i:16798231 original size:40 final size:40
Alignment explanation
Indices: 16798183--16798270 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 40
16798173 TTTTATATTA
* *
16798183 TTGCATGATTATATATTTGCAT-GAGTGGTTATTAATATAT
1 TTGCATGATTATATATTTGCATGGA-TGATAATTAATATAT
16798223 TTGCATGATTATATATTTGCATGGATGATAATTAATATAT
1 TTGCATGATTATATATTTGCATGGATGATAATTAATATAT
16798263 TTGCATGA
1 TTGCATGA
16798271 CATTTTTGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 43 0.96
41 2 0.04
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (40 bp):
TTGCATGATTATATATTTGCATGGATGATAATTAATATAT
Found at i:16800132 original size:10 final size:10
Alignment explanation
Indices: 16800117--16800145 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
16800107 AGATAAGGAT
16800117 AATAAAAATA
1 AATAAAAATA
16800127 AAT-AAAATA
1 AATAAAAATA
16800136 AATAAAAATA
1 AATAAAAATA
16800146 GAGTTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AATAAAAATA
Found at i:16802275 original size:46 final size:44
Alignment explanation
Indices: 16802200--16802295 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 44
16802190 TTTCTTTTCA
* * *
16802200 AAAAATAAAAAATTTTTTAAATTGACCCAAATGGTGAAAAATTT
1 AAAAATAAAAAAATTTTTAAATGGACCCAAACGGTGAAAAATTT
* * * *
16802244 AGAAATAAAAAGAATTTTTAAATAGGGCCCAAACGGTGGAGAATTT
1 AAAAATAAAAA-AATTTTTAAAT-GGACCCAAACGGTGAAAAATTT
16802290 AAAAAT
1 AAAAAT
16802296 TCAAAAGAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 10 0.24
45 10 0.24
46 22 0.52
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (44 bp):
AAAAATAAAAAAATTTTTAAATGGACCCAAACGGTGAAAAATTT
Found at i:16803093 original size:14 final size:13
Alignment explanation
Indices: 16803074--16803121 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 13
16803064 AAAATAAAAG
16803074 TATTTTTAAGAAA
1 TATTTTTAAGAAA
16803087 TTATTTTTCACAAGAAA
1 -TATTTTT---AAGAAA
16803104 TATTTTTAAGAAA
1 TATTTTTAAGAAA
16803117 GTATT
1 -TATT
16803122 AATTTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 6 0.20
14 11 0.37
16 7 0.23
17 6 0.20
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (13 bp):
TATTTTTAAGAAA
Found at i:16803183 original size:56 final size:56
Alignment explanation
Indices: 16803113--16803326 Score: 223
Period size: 56 Copynumber: 3.8 Consensus size: 56
16803103 ATATTTTTAA
*
16803113 GAAAGTATTAA-TTTTCTTTGAAAACAAAAATTTCAAAAATGTTTTAAGAAAAAGTT
1 GAAAGTATCAATTTTTC-TTGAAAACAAAAATTTCAAAAATGTTTTAAGAAAAAGTT
* * ** * * * *
16803169 GAAAATATCAATTTTTCTCGATGACGAAAATTTCAAAAATGCTCTAAGAAAAAATT
1 GAAAGTATCAATTTTTCTTGAAAACAAAAATTTCAAAAATGTTTTAAGAAAAAGTT
* * * *** * *
16803225 GAAAGTGTCAATTTTTCTTGAAAATAAAAATTTTAAAAAAAATTTGAGAAAAAGCT
1 GAAAGTATCAATTTTTCTTGAAAACAAAAATTTCAAAAATGTTTTAAGAAAAAGTT
** *
16803281 GAAAGTATCAATTTTTCTTGAAAATGAAAATTTGAAAACATGTTTT
1 GAAAGTATCAATTTTTCTTGAAAACAAAAATTTCAAAA-ATGTTTT
16803327 TTTTTTGAAG
Statistics
Matches: 126, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
56 117 0.93
57 9 0.07
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (56 bp):
GAAAGTATCAATTTTTCTTGAAAACAAAAATTTCAAAAATGTTTTAAGAAAAAGTT
Found at i:16803739 original size:59 final size:59
Alignment explanation
Indices: 16803524--16803732 Score: 247
Period size: 59 Copynumber: 3.5 Consensus size: 59
16803514 AAGAAATGTT
* * * * * *
16803524 TTTTAAGGTAAAGTTAAAAGTATCAATTTTTTTTGAAAATAAAAATTTTTAAAAAAACGTC
1 TTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAAAA-TTTCAAAAAAA-ATA
* * * * *
16803585 TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAAAAAATATT
1 TTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAAATA
* * * * * *
16803644 TTTTGAAGAAAATTTGAGAGAATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAAAAA
1 TTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAAATA
16803703 TTTTGAGGAAAAGTTAAAAGTATCAATTTT
1 TTTTGAGGAAAAGTTAAAAGTATCAATTTT
16803733 CTTTGAATAA
Statistics
Matches: 124, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
59 76 0.61
60 9 0.07
61 39 0.31
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (59 bp):
TTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAAATA
Found at i:16807093 original size:18 final size:18
Alignment explanation
Indices: 16807070--16807309 Score: 174
Period size: 18 Copynumber: 13.8 Consensus size: 18
16807060 AATTTTACTT
16807070 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
16807088 ATAAATAATATTATATT-
1 ATAAATAATATTATATTA
* *
16807105 A-CAAT-ATATTA-ATAA
1 ATAAATAATATTATATTA
** * *
16807120 ATAATATTGTAATATATTC
1 ATAA-ATAATATTATATTA
*
16807139 ATAAATAATATTATGTTA
1 ATAAATAATATTATATTA
16807157 ATAAATAATATTATTATATA
1 ATAAATAATATTA-TAT-TA
16807177 AT-AATAA-A-TATTATT-
1 ATAAATAATATTA-TATTA
16807192 ATAAATAA-A-TATA-TA
1 ATAAATAATATTATATTA
*
16807207 CT-AAT-ATATTAATATTA
1 ATAAATAATATT-ATATTA
*
16807224 ATAAATAATATTATATAA
1 ATAAATAATATTATATTA
*
16807242 ATAAATATTATT-TATTA
1 ATAAATAATATTATATTA
16807259 ATAAA-AATA-TA-A-TA
1 ATAAATAATATTATATTA
*
16807273 ATAAATATTATTAATTTAATTA
1 ATAAATAATATT-A--T-ATTA
16807295 ATAAATAATATTATA
1 ATAAATAATATTATA
16807310 ATATATAATA
Statistics
Matches: 177, Mismatches: 21, Indels: 48
0.72 0.09 0.20
Matches are distributed among these distances:
13 1 0.01
14 14 0.08
15 18 0.10
16 20 0.11
17 22 0.12
18 64 0.36
19 19 0.11
20 4 0.02
21 2 0.01
22 13 0.07
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:16807149 original size:69 final size:67
Alignment explanation
Indices: 16807068--16807327 Score: 218
Period size: 67 Copynumber: 3.9 Consensus size: 67
16807058 ATAATTTTAC
*
16807068 TTATAAATAATATTATATTAATAAATAATATTATATTACAATATATTAATAAATAATATTGTAAT
1 TTATAAATAATATTATATTAATAAATAATATTATATTA-AATATATTAATAAATAATATTATAAT
16807133 ATA
65 ATA
* * *
16807136 TTCATAAATAATATTATGTTAATAAATAATA-T-TATT--ATATAATAATAAATATTATTATAAA
1 TT-ATAAATAATATTATATTAATAAATAATATTATATTAAATATATTAATAAATAATATTAT-AA
*
16807197 TAAA
64 TATA
* * *
16807201 TATATACTAAT-ATATTAATATTAATAAATAATATTATA-TAAATAAATATTATTTATTAATA--
1 T-TATA--AATAATATT-ATATTAATAAATAATATTATATTAAAT--ATATTAATAAATAATATT
*
16807262 AAAATATAA
60 ATAATAT-A
* * * *
16807271 TAATAAATATTATTA-ATTTAATTAATAA-ATAATATTATAATATA-TAATAAATAATAT
1 TTATAAATAATATTATA-TTAATAAATAATATTATATTA-AATATATTAATAAATAATAT
16807328 AAAGAATAAT
Statistics
Matches: 154, Mismatches: 20, Indels: 38
0.73 0.09 0.18
Matches are distributed among these distances:
64 19 0.12
65 18 0.12
66 15 0.10
67 38 0.25
68 12 0.08
69 36 0.23
70 5 0.03
72 11 0.07
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (67 bp):
TTATAAATAATATTATATTAATAAATAATATTATATTAAATATATTAATAAATAATATTATAATA
TA
Found at i:16807158 original size:41 final size:41
Alignment explanation
Indices: 16807113--16807327 Score: 148
Period size: 41 Copynumber: 4.9 Consensus size: 41
16807103 TTACAATATA
* * *
16807113 TTAATAAATAATATTGTAATATATTCATAAATAATATTATG
1 TTAATAAATAATATTATAATATAATAATAAATAATATTATG
* *
16807154 TTAATAAATAATATTATTATATAATAATAAATATTATTA--
1 TTAATAAATAATATTATAATATAATAATAAATAATATTATG
* * * *
16807193 TAAATAAATATATACTAATATATTAATATTAATAAATAATATTATA
1 TTAATAAATA-ATA-T--TATAAT-ATAATAATAAATAATATTATG
* * *
16807239 TAAATAAATATTATTTATTAATAAAAATATAATAATAAATATTATTAATTTAA
1 TTAATAAATA--A--TATT-AT---AATATAATAATAAATAATATT-A--T-G
16807292 TTAATAAATAATATTATAATAT-ATAATAAATAATAT
1 TTAATAAATAATATTATAATATAATAATAAATAATAT
16807328 AAAGAATAAT
Statistics
Matches: 141, Mismatches: 15, Indels: 33
0.75 0.08 0.17
Matches are distributed among these distances:
39 9 0.06
40 3 0.02
41 35 0.25
43 4 0.03
44 30 0.21
45 5 0.04
46 11 0.08
47 4 0.03
48 3 0.02
49 22 0.16
50 3 0.02
51 1 0.01
52 1 0.01
53 10 0.07
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (41 bp):
TTAATAAATAATATTATAATATAATAATAAATAATATTATG
Found at i:16807178 original size:31 final size:31
Alignment explanation
Indices: 16807143--16807283 Score: 101
Period size: 34 Copynumber: 4.3 Consensus size: 31
16807133 ATATTCATAA
*
16807143 ATAATATTATGTTAATAAATAATATTATTAT
1 ATAATATTATATTAATAAATAATATTATTAT
* *
16807174 ATAATAATAAATATTATTATAAATAAATATATACTA-
1 ATAAT-AT-TATATTA--ATAAAT-AATAT-TATTAT
*
16807210 AT-ATATTAATATTAATAAATAATATTATATAA
1 ATAATATT-ATATTAATAAATAATATTAT-TAT
* *
16807242 ATAAATATTATTTATTAATAAA-AATATAATAAT
1 AT-AATATTA--TATTAATAAATAATATTATTAT
16807275 A-AATATTAT
1 ATAATATTAT
16807284 TAATTTAATT
Statistics
Matches: 89, Mismatches: 8, Indels: 28
0.71 0.06 0.22
Matches are distributed among these distances:
29 1 0.01
30 2 0.02
31 19 0.21
32 10 0.11
33 8 0.09
34 20 0.22
35 18 0.20
36 7 0.08
37 4 0.04
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (31 bp):
ATAATATTATATTAATAAATAATATTATTAT
Found at i:16807199 original size:35 final size:36
Alignment explanation
Indices: 16807107--16807323 Score: 140
Period size: 35 Copynumber: 6.1 Consensus size: 36
16807097 ATTATATTAC
* *
16807107 AATA-TATTAATAAATAATATTGTAATATATTCATAA-A
1 AATATTATTAATAAATAATA-T-TATTATA-TAATAATA
16807144 TAATATTATGTTAATAAATAATATTATTATATAATAATA
1 -AATATTA--TTAATAAATAATATTATTATATAATAATA
16807183 AATATTATT-ATAAATAA-A-TA-TATACTAAT-AT-
1 AATATTATTAATAAATAATATTATTATA-TAATAATA
* *
16807214 ATTAATATTAATAAATAATATTA-TATA-AATAA-A
1 AATATTATTAATAAATAATATTATTATATAATAATA
* * * *
16807247 TATTATTTATTAATAAA-AATATAATAATA-AATATTATT
1 -AATA-TTATTAATAAATAATATTATTATATAATA--ATA
*
16807285 AAT-TTAATTAATAAATAATATTATAATAT-ATAATA
1 AATATT-ATTAATAAATAATATTATTATATAATAATA
16807320 AATA
1 AATA
16807324 ATATAAAGAA
Statistics
Matches: 148, Mismatches: 11, Indels: 42
0.74 0.05 0.21
Matches are distributed among these distances:
31 7 0.05
32 17 0.11
33 8 0.05
34 17 0.11
35 32 0.22
36 11 0.07
37 17 0.11
38 16 0.11
39 9 0.06
40 1 0.01
41 13 0.09
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (36 bp):
AATATTATTAATAAATAATATTATTATATAATAATA
Found at i:16807284 original size:31 final size:30
Alignment explanation
Indices: 16807172--16807285 Score: 133
Period size: 28 Copynumber: 3.7 Consensus size: 30
16807162 TAATATTATT
* *
16807172 ATATAATAATAAATATTATTATAAATAAAT
1 ATATAATAATAAATATTATTATTAATAAAA
* *
16807202 ATATACTAAT--ATATTAATATTAATAAATA
1 ATATAATAATAAATATTATTATTAATAAA-A
16807231 ATATTATATAAATAAATATTATTTATTAATAAAA
1 ATA-TA-AT-AATAAATATTA-TTATTAATAAAA
16807265 ATATAATAATAAATATTATTA
1 ATATAATAATAAATATTATTA
16807286 ATTTAATTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
28 15 0.21
29 3 0.04
30 14 0.20
31 12 0.17
32 5 0.07
33 2 0.03
34 10 0.14
35 10 0.14
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
ATATAATAATAAATATTATTATTAATAAAA
Found at i:16807339 original size:22 final size:20
Alignment explanation
Indices: 16807257--16807342 Score: 66
Period size: 22 Copynumber: 4.1 Consensus size: 20
16807247 TATTATTTAT
*
16807257 TAATAAAAATATAATAATAAA
1 TAATATAAA-ATAATAATAAA
* **
16807278 TATTATTAATTTAATTAATAAA
1 TAATA-TAAAATAA-TAATAAA
*
16807300 TAATATTATAATATATAATAAA
1 TAATA-TAAAATA-ATAATAAA
*
16807322 TAATAT-AAAGAATAATAAA
1 TAATATAAAATAATAATAAA
16807341 TA
1 TA
16807343 GTTTTATTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
19 10 0.19
20 3 0.06
21 8 0.15
22 30 0.58
23 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (20 bp):
TAATATAAAATAATAATAAA
Found at i:16807349 original size:93 final size:93
Alignment explanation
Indices: 16807172--16807350 Score: 217
Period size: 93 Copynumber: 1.9 Consensus size: 93
16807162 TAATATTATT
*
16807172 ATATAATAATAAATATTATTATAAATAAATATATACTAATATATTAATATTAATAAATAATATTA
1 ATATAATAATAAATATTATTATAAATAAATATATACTAATATATTAATATTAATAAATAATATAA
* *
16807237 TATAAATAAATATTATTTATTAATAAAA
66 AATAAATAAATAGTATTTATTAATAAAA
* *
16807265 ATATAATAATAAATATTATTAATTTAATTAATA-A-A-TAATAT-TATAATATATAATAAATAAT
1 ATATAATAATAAATATTATT-A-TAAATAAATATATACTAATATAT-TAATAT-TAATAAATAAT
16807326 ATAAAGA-ATAATAAATAGT-TTTATT
62 ATAAA-ATA-AATAAATAGTATTTATT
16807351 TTTAATATTT
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
91 1 0.01
92 12 0.16
93 42 0.56
94 12 0.16
95 8 0.11
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (93 bp):
ATATAATAATAAATATTATTATAAATAAATATATACTAATATATTAATATTAATAAATAATATAA
AATAAATAAATAGTATTTATTAATAAAA
Found at i:16807389 original size:19 final size:18
Alignment explanation
Indices: 16807353--16807446 Score: 50
Period size: 19 Copynumber: 5.2 Consensus size: 18
16807343 GTTTTATTTT
*
16807353 TAATATTTTTTATATTAACA
1 TAATA-TTTTAATATTAA-A
*
16807373 TAATATTTTAATGTTAAA
1 TAATATTTTAATATTAAA
* * **
16807391 TATTATTATTAAAATTTGA
1 TAATATT-TTAATATTAAA
** *
16807410 TTCTTTTTTAATATT-AA
1 TAATATTTTAATATTAAA
*
16807427 T-A-ATTTTAATAATAAA
1 TAATATTTTAATATTAAA
16807443 TAAT
1 TAAT
16807447 CTAATATATA
Statistics
Matches: 55, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
15 9 0.16
16 3 0.05
17 3 0.05
18 14 0.25
19 21 0.38
20 5 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
TAATATTTTAATATTAAA
Found at i:16807619 original size:26 final size:26
Alignment explanation
Indices: 16807580--16807639 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
16807570 TTTTATTTTA
* * *
16807580 AAATT-AAAATTTTTAATAAATTATTT
1 AAATTGAATATTTTGAAT-AATTATGT
*
16807606 AAATTGAATATTTTGGATAATTATGT
1 AAATTGAATATTTTGAATAATTATGT
16807632 AAATTGAA
1 AAATTGAA
16807640 ATCAATATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.69
27 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (26 bp):
AAATTGAATATTTTGAATAATTATGT
Found at i:16811115 original size:60 final size:60
Alignment explanation
Indices: 16811051--16811272 Score: 243
Period size: 60 Copynumber: 3.6 Consensus size: 60
16811041 ATTTCAAGAA
* * *
16811051 AAAATTGATACTTTCAACTTTTTCCTAAAACTA-TTTTTAAAATCTTTTTTTATTTTCAGG
1 AAAATTGATACTTTCAACTTTCTCCTAAAAATATTTTTTAAAA-CCTTTTTTATTTTCAGG
* *
16811111 AAAATTGATACTTTCAACATTCTCTTAAAAATATTTTTTAAAACCTTTTTTATTTTCAGG
1 AAAATTGATACTTTCAACTTTCTCCTAAAAATATTTTTTAAAACCTTTTTTATTTTCAGG
* ****** *
16811171 AAAATTGATACTTTCAACTTTC-CTTTAAAAATATTTTTTAAAAAAAAAAATTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTCTC-CTAAAAATATTTTTT-AAAACCTTTTTTATTTTC-AGG
*
16811233 AAAATTGATACTTTCAACTTT-TCCTCAAAAAAAATTTTTT
1 AAAATTGATACTTTCAACTTTCTCCT--AAAAATATTTTTT
16811273 TGAATTTTTA
Statistics
Matches: 140, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
59 1 0.01
60 81 0.58
61 22 0.16
62 24 0.17
63 12 0.09
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTCTCCTAAAAATATTTTTTAAAACCTTTTTTATTTTCAGG
Found at i:16812093 original size:28 final size:25
Alignment explanation
Indices: 16812062--16812130 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
16812052 AATTCAGAAC
16812062 AGATAAACCCAAAAAAAATAATAATAAT
1 AGATAAA--CAAAAAAAA-AATAATAAT
* * *
16812090 AGATAAATAATAAAAAAATATTAAT
1 AGATAAACAAAAAAAAAATAATAAT
* *
16812115 AGATAAATAATAAAAA
1 AGATAAACAAAAAAAA
16812131 CATATATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 24 0.63
26 7 0.18
28 7 0.18
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (25 bp):
AGATAAACAAAAAAAAAATAATAAT
Found at i:16812100 original size:14 final size:14
Alignment explanation
Indices: 16812081--16812127 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
16812071 CAAAAAAAAT
16812081 AATAATAATAGATA
1 AATAATAATAGATA
16812095 AATAATAA-A-A-A
1 AATAATAATAGATA
*
16812106 AATATTAATAGATA
1 AATAATAATAGATA
16812120 AATAATAA
1 AATAATAA
16812128 AAACATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 8 0.29
12 2 0.07
13 2 0.07
14 16 0.57
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (14 bp):
AATAATAATAGATA
Found at i:16812114 original size:25 final size:24
Alignment explanation
Indices: 16812075--16812181 Score: 96
Period size: 25 Copynumber: 4.4 Consensus size: 24
16812065 TAAACCCAAA
*
16812075 AAAAATAATAATAATAGATAAATAAT
1 AAAAA-AATATTAATA-ATAAATAAT
16812101 AAAAAAATATTAATAGATAAATAAT
1 AAAAAAATATTAATA-ATAAATAAT
* * *
16812126 AAAAACATATATATTAATAGAT--T
1 AAAAAAATAT-TAATAATAAATAAT
16812149 AAAAAAATATTAA-AA-AAATTAAT
1 AAAAAAATATTAATAATAAA-TAAT
16812172 AATAAAAATA
1 AA-AAAAATA
16812182 AAAATAAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
20 2 0.03
21 3 0.04
22 2 0.03
23 13 0.19
24 7 0.10
25 33 0.48
26 9 0.13
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (24 bp):
AAAAAAATATTAATAATAAATAAT
Found at i:16812162 original size:11 final size:11
Alignment explanation
Indices: 16812094--16812181 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
16812084 AATAATAGAT
*
16812094 AAATAATAAAA
1 AAATATTAAAA
16812105 AAATATTAATAGA
1 AAATATTAA-A-A
*
16812118 TAAATAATAAAA
1 -AAATATTAAAA
* **
16812130 ACATATATATTA
1 AAATAT-TAAAA
* *
16812142 ATAGATTAAAA
1 AAATATTAAAA
16812153 AAATATTAAAA
1 AAATATTAAAA
*
16812164 AAATTAATAATAA
1 AAA-TATTAA-AA
16812177 AAATA
1 AAATA
16812182 AAAATAAAAT
Statistics
Matches: 58, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
11 27 0.47
12 16 0.28
13 7 0.12
14 8 0.14
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.28
Consensus pattern (11 bp):
AAATATTAAAA
Found at i:16812478 original size:44 final size:44
Alignment explanation
Indices: 16812367--16812576 Score: 207
Period size: 44 Copynumber: 4.8 Consensus size: 44
16812357 AAATTTTGAT
* *
16812367 CAAAGCTCCTCTAAGTAGAA-GCTCAATGACTTTGAGTAAA-ATAAA
1 CAAAGCTCCTCTAAGCA-AAGGCTCAACGACTTTGA--AAACATAAA
** * *
16812412 CAAAATTCCTCTAA-TAAGAGGCTTAACGACTTTGAAAACATAAA
1 CAAAGCTCCTCTAAGCAA-AGGCTCAACGACTTTGAAAACATAAA
* *
16812456 TAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTGAAAACATAAA
1 CAAAGCTCCTCTAAGCAAAGGCTCAACGACTTTGAAAACATAAA
* * *
16812500 CAAAGCTTCTCTAAGCAGAGG--CAACAGAACTTTTGAAAAAATAAA
1 CAAAGCTCCTCTAAGCAAAGGCTCAAC-G-AC-TTTGAAAACATAAA
*
16812545 CAAAGCTCCTCTAAGC-AAGGCTCAACAACTTT
1 CAAAGCTCCTCTAAGCAAAGGCTCAACGACTTT
16812577 TGAAGAAACA
Statistics
Matches: 138, Mismatches: 18, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
42 4 0.03
43 7 0.05
44 68 0.49
45 55 0.40
46 4 0.03
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.22
Consensus pattern (44 bp):
CAAAGCTCCTCTAAGCAAAGGCTCAACGACTTTGAAAACATAAA
Found at i:16812673 original size:41 final size:40
Alignment explanation
Indices: 16812595--16812718 Score: 167
Period size: 41 Copynumber: 3.0 Consensus size: 40
16812585 CAAATGCTCA
* *
16812595 TTTAAACAGAGGCAACCACGACTTTTTGAAAGTAAATTACTC
1 TTTAAACAGAGGC-ACCACAAC-TTTTAAAAGTAAATTACTC
* *
16812637 TTCTAAACAGAGGTACCATAACTTTTAAAAGTAAATTACTCC
1 TT-TAAACAGAGGCACCACAACTTTTAAAAGTAAATTACT-C
*
16812679 TTTAAACAGAGGCACCACAACTTTTAAAAATAAATTACTC
1 TTTAAACAGAGGCACCACAACTTTTAAAAGTAAATTACTC
16812719 ATTGACAATC
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
40 1 0.01
41 51 0.70
42 11 0.15
43 10 0.14
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (40 bp):
TTTAAACAGAGGCACCACAACTTTTAAAAGTAAATTACTC
Found at i:16813746 original size:11 final size:10
Alignment explanation
Indices: 16813717--16813791 Score: 62
Period size: 11 Copynumber: 7.1 Consensus size: 10
16813707 TGAGTCTTCA
*
16813717 TTTTTATTTT
1 TTTTTCTTTT
16813727 TTTTCTCTTTGT
1 TTTT-TCTTT-T
16813739 TTTTTCTTATT
1 TTTTTCTT-TT
*
16813750 TTTTTAATTTT
1 TTTTT-CTTTT
*
16813761 TCTTTTCTTAT
1 T-TTTTCTTTT
16813772 TTTTT-TTTT
1 TTTTTCTTTT
*
16813781 TTTTTATTTT
1 TTTTTCTTTT
16813791 T
1 T
16813792 CAAGCATAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
9 8 0.15
10 13 0.24
11 21 0.39
12 12 0.22
ACGTcount: A:0.08, C:0.07, G:0.01, T:0.84
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:16813748 original size:25 final size:23
Alignment explanation
Indices: 16813720--16813784 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
16813710 GTCTTCATTT
* *
16813720 TTATTTTTTTTCTCTTTGTTTTTTC
1 TTATTTTTTTTAT-TTT-TCTTTTC
*
16813745 TTATTTTTTTAATTTTTCTTTTC
1 TTATTTTTTTTATTTTTCTTTTC
*
16813768 TTATTTTTTTTTTTTTT
1 TTATTTTTTTTATTTTT
16813785 TATTTTTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 21 0.60
24 3 0.09
25 11 0.31
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.83
Consensus pattern (23 bp):
TTATTTTTTTTATTTTTCTTTTC
Found at i:16813774 original size:8 final size:8
Alignment explanation
Indices: 16813717--16813791 Score: 57
Period size: 8 Copynumber: 9.4 Consensus size: 8
16813707 TGAGTCTTCA
16813717 TTTTTATT
1 TTTTTATT
16813725 TTTTT-TCT
1 TTTTTAT-T
16813733 CTTTGTT-TT
1 -TTT-TTATT
*
16813742 TTCTTATT
1 TTTTTATT
*
16813750 TTTTTA-A
1 TTTTTATT
*
16813757 TTTTTCTT
1 TTTTTATT
*
16813765 TTCTTATT
1 TTTTTATT
*
16813773 TTTTTTTT
1 TTTTTATT
16813781 TTTTTATT
1 TTTTTATT
16813789 TTT
1 TTT
16813792 CAAGCATAGT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
7 8 0.15
8 37 0.71
9 4 0.08
10 3 0.06
ACGTcount: A:0.08, C:0.07, G:0.01, T:0.84
Consensus pattern (8 bp):
TTTTTATT
Found at i:16813785 original size:25 final size:24
Alignment explanation
Indices: 16813720--16813792 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
16813710 GTCTTCATTT
* *
16813720 TTATTTTTTTTCTCTTTGTTTTTTC
1 TTATTTTTTTT-TATTTTTTTTTTC
* *
16813745 TTA-TTTTTTTAATTTTTCTTTTC
1 TTATTTTTTTTTATTTTTTTTTTC
*
16813768 TTATTTTTTTTTTTTTTTATTTTTC
1 TTATTTTTTTTTATTTTT-TTTTTC
16813793 AAGCATAGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 12 0.31
24 19 0.49
25 8 0.21
ACGTcount: A:0.08, C:0.08, G:0.01, T:0.82
Consensus pattern (24 bp):
TTATTTTTTTTTATTTTTTTTTTC
Found at i:16824434 original size:60 final size:61
Alignment explanation
Indices: 16824307--16824472 Score: 221
Period size: 60 Copynumber: 2.7 Consensus size: 61
16824297 AATTTCAAAG
* * *
16824307 AAAAATTGATACTTTTAACTTTTTTCC-TAAAAATA-TTTTTAAAATCTTTTTTTATTTTCAG
1 AAAAATTGATACTTTCAAC--TTTTCCTTAAAAATATTTTTTAAAATCCTTTTTTATTTTCAA
** *
16824368 TGAAATTGATACTTTCAACTTTCCCTTAAAAATATTTTTTAAAA-CCTTTTTTATTTTCAA
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAAAATCCTTTTTTATTTTCAA
*
16824428 AAAAATTGATACTTTCAACTTTTCTTTAAAAATATTTTTTTAAAA
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATA-TTTTTTAAAA
16824473 AAGAAAAAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
59 5 0.05
60 52 0.57
61 35 0.38
ACGTcount: A:0.36, C:0.11, G:0.03, T:0.49
Consensus pattern (61 bp):
AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAAAATCCTTTTTTATTTTCAA
Found at i:16824585 original size:17 final size:17
Alignment explanation
Indices: 16824563--16824596 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16824553 GAAAATCACT
*
16824563 AAAAAAAATA-AAATTA
1 AAAAAAAAAAGAAATTA
16824579 AAAAAAAAAAGAAATTA
1 AAAAAAAAAAGAAATTA
16824596 A
1 A
16824597 GGAATATCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAAAAAAAGAAATTA
Found at i:16824631 original size:3 final size:3
Alignment explanation
Indices: 16824623--16824660 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
16824613 TCTAATTAAC
16824623 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16824661 AAAAAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16825142 original size:22 final size:23
Alignment explanation
Indices: 16825107--16825149 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
16825097 TTCACCGGAT
*
16825107 TCTAAAAATTTTCAAAAAAAAAC
1 TCTAAAAATATTCAAAAAAAAAC
16825130 TCTAAAAA-ATTCAAAAAAAA
1 TCTAAAAATATTCAAAAAAAA
16825150 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (23 bp):
TCTAAAAATATTCAAAAAAAAAC
Found at i:16825425 original size:8 final size:7
Alignment explanation
Indices: 16825407--16825523 Score: 50
Period size: 8 Copynumber: 16.4 Consensus size: 7
16825397 ACTCAAAAAC
16825407 AAATAAT
1 AAATAAT
16825414 -AATAGAT
1 AAATA-AT
16825421 AAAT-AT
1 AAATAAT
16825427 -AA-AAT
1 AAATAAT
16825432 AATATACAT
1 AA-ATA-AT
*
16825441 TAATAGAT
1 AAATA-AT
16825449 AAATAAT
1 AAATAAT
16825456 AAAATATAT
1 -AAATA-AT
*
16825465 ATATTAAT
1 A-AATAAT
* *
16825473 AGATTA-
1 AAATAAT
16825479 AAATATAT
1 AAATA-AT
*
16825487 AAAAAAAT
1 -AAATAAT
*
16825495 TAATAAT
1 AAATAAT
16825502 AAATAAT
1 AAATAAT
16825509 AAA-AAT
1 AAATAAT
16825515 AAA-AAT
1 AAATAAT
16825521 AAA
1 AAA
16825524 ATGGACCATC
Statistics
Matches: 84, Mismatches: 13, Indels: 27
0.68 0.10 0.22
Matches are distributed among these distances:
5 4 0.05
6 22 0.26
7 22 0.26
8 24 0.29
9 12 0.14
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.30
Consensus pattern (7 bp):
AAATAAT
Found at i:16825432 original size:21 final size:22
Alignment explanation
Indices: 16825407--16825457 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
16825397 ACTCAAAAAC
* *
16825407 AAATAATAATAGATAAATATA-
1 AAATAATAATACATAAATAGAT
*
16825428 AAATAAT-ATACATTAATAGAT
1 AAATAATAATACATAAATAGAT
16825449 AAATAATAA
1 AAATAATAA
16825458 AATATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 10 0.40
21 14 0.56
22 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
AAATAATAATACATAAATAGAT
Found at i:16825449 original size:28 final size:28
Alignment explanation
Indices: 16825409--16825512 Score: 112
Period size: 28 Copynumber: 3.9 Consensus size: 28
16825399 TCAAAAACAA
16825409 ATAA-TAATAGATAAAT-ATAAAATAAT
1 ATAATTAATAGATAAATAATAAAATAAT
16825435 ATACATTAATAGATAAATAATAAAAT-AT
1 ATA-ATTAATAGATAAATAATAAAATAAT
* * *
16825463 ATATATTAATAGATTAA-AAT-ATATAAA
1 ATA-ATTAATAGATAAATAATAAAATAAT
*
16825490 AAAATTAATA-ATAAATAATAAAA
1 ATAATTAATAGATAAATAATAAAA
16825513 ATAAAAATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
25 4 0.06
26 16 0.25
27 9 0.14
28 29 0.45
29 7 0.11
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (28 bp):
ATAATTAATAGATAAATAATAAAATAAT
Found at i:16825456 original size:24 final size:24
Alignment explanation
Indices: 16825429--16825510 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 24
16825419 ATAAATATAA
*
16825429 AATAATATACATTAATAGATAAAT
1 AATAATATAAATTAATAGATAAAT
16825453 AATAAAATATATATATTAATAGATTAAAAT
1 AAT--AATATA-A-ATTAATAGA-T-AAAT
*
16825483 ATATAA-AAAAATTAATA-ATAAAT
1 A-ATAATATAAATTAATAGATAAAT
16825506 AATAA
1 AATAA
16825511 AAATAAAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
22 4 0.08
23 5 0.10
24 4 0.08
25 1 0.02
26 13 0.27
27 1 0.02
28 11 0.22
29 3 0.06
30 5 0.10
31 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (24 bp):
AATAATATAAATTAATAGATAAAT
Found at i:16825507 original size:19 final size:19
Alignment explanation
Indices: 16825475--16825523 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
16825465 ATATTAATAG
*
16825475 ATTAAAATATATAA-AAAA
1 ATTAAAATAAATAATAAAA
16825493 ATTAATAATAAATAATAAAA
1 ATTAA-AATAAATAATAAAA
*
16825513 ATAAAAATAAA
1 ATTAAAATAAA
16825524 ATGGACCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 5 0.19
19 14 0.52
20 8 0.30
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
ATTAAAATAAATAATAAAA
Found at i:16825521 original size:22 final size:23
Alignment explanation
Indices: 16825447--16825522 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 23
16825437 ACATTAATAG
* **
16825447 ATAAATAATAAAATATATATATTA
1 ATAAATAAT-AAATATATAAAAAA
* *
16825471 ATAGATTA-AAATATATAAAAAA
1 ATAAATAATAAATATATAAAAAA
*
16825493 ATTAATAATAAATA-ATAAAAATA
1 ATAAATAATAAATATATAAAAA-A
16825516 A-AAATAA
1 ATAAATAA
16825523 AATGGACCAT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
22 28 0.68
23 7 0.17
24 6 0.15
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (23 bp):
ATAAATAATAAATATATAAAAAA
Found at i:16827043 original size:16 final size:16
Alignment explanation
Indices: 16827016--16827058 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
16827006 AAAAATATTT
*
16827016 TTTTATTATTTATTTAA
1 TTTTA-TATTTATATAA
16827033 TTTTATATTTATATAA
1 TTTTATATTTATATAA
16827049 TTATTATATT
1 TT-TTATATT
16827059 AATAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATATTTATATAA
Found at i:16827056 original size:17 final size:17
Alignment explanation
Indices: 16827022--16827070 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
16827012 ATTTTTTTAT
*
16827022 TATTTATTTAATT-TTA
1 TATTTATATAATTATTA
16827038 TATTTATATAATTATTA
1 TATTTATATAATTATTA
* *
16827055 TATTAATAAAATTATT
1 TATTTATATAATTATT
16827071 TTATGTCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTATATAATTATTA
Found at i:16828281 original size:15 final size:15
Alignment explanation
Indices: 16828261--16828312 Score: 77
Period size: 15 Copynumber: 3.4 Consensus size: 15
16828251 TAAGAGGTAA
16828261 ATTTTTTCCTTTTTT
1 ATTTTTTCCTTTTTT
*
16828276 ATTTTTTCCTTTTTA
1 ATTTTTTCCTTTTTT
16828291 ATTTGTTTCCTTTTTT
1 ATTT-TTTCCTTTTTT
*
16828307 GTTTTT
1 ATTTTT
16828313 ATGATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 20 0.61
16 13 0.39
ACGTcount: A:0.08, C:0.12, G:0.04, T:0.77
Consensus pattern (15 bp):
ATTTTTTCCTTTTTT
Found at i:16831546 original size:15 final size:15
Alignment explanation
Indices: 16831523--16831553 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16831513 GTAGTAGTAG
*
16831523 CTATGTATGAATATT
1 CTATCTATGAATATT
16831538 CTATCTATGAATATT
1 CTATCTATGAATATT
16831553 C
1 C
16831554 AAAGTCCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (15 bp):
CTATCTATGAATATT
Found at i:16831845 original size:25 final size:25
Alignment explanation
Indices: 16831817--16831875 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
16831807 AATAAAAAAT
* * *
16831817 TATTTTATTATTTTTATA-TTTTTAA
1 TATTTTATTA-TTATATACATTTAAA
*
16831842 TATTTTATGATTATATACATTTAAA
1 TATTTTATTATTATATACATTTAAA
16831867 TATTTTATT
1 TATTTTATT
16831876 TACTCATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (25 bp):
TATTTTATTATTATATACATTTAAA
Found at i:16834155 original size:129 final size:128
Alignment explanation
Indices: 16833982--16834220 Score: 401
Period size: 129 Copynumber: 1.9 Consensus size: 128
16833972 TTATTGTTCT
16833982 TTTTATAATTAATTAAACCTTCAAATATTTATTTTCACTCTTATTAAAAGAAAAATAATTAATTG
1 TTTTATAATTAATTAAACCTTCAAATATTTATTTTCACTCTTATTAAAAGAAAAATAATTAATTG
*
16834047 TTTTCCATCAAATCAATGATTTAATTGAGTGAA-AATTAATGTATAATAAATATTTAAATATTTG
66 -TTTCCATCAAATCAATAATTTAATTGAGT-AAGAATTAATGTATAATAAATATTTAAATATTTG
*
16834111 TTTTATAATTAATTAAACC-TCTAAATATTTATTTTCGCTCTTATTAAAAGAAAAATAATTAATT
1 TTTTATAATTAATTAAACCTTC-AAATATTTATTTTCACTCTTATTAAAAGAAAAATAATTAATT
* *
16834175 GTTTCCGTCGAATCAATAATTTAATTGAGTAAGAATTAATGTATAA
65 GTTTCCATCAAATCAATAATTTAATTGAGTAAGAATTAATGTATAA
16834221 AACTTTAATT
Statistics
Matches: 104, Mismatches: 4, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
127 2 0.02
128 41 0.39
129 61 0.59
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (128 bp):
TTTTATAATTAATTAAACCTTCAAATATTTATTTTCACTCTTATTAAAAGAAAAATAATTAATTG
TTTCCATCAAATCAATAATTTAATTGAGTAAGAATTAATGTATAATAAATATTTAAATATTTG
Found at i:16835377 original size:30 final size:30
Alignment explanation
Indices: 16835342--16835399 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16835332 TATTACAATT
*
16835342 AATTGAATCATCAAATATTTATTTTTATCG
1 AATTGAATCATAAAATATTTATTTTTATCG
**
16835372 AATTGAATTTTAAAATATTTATTTTTAT
1 AATTGAATCATAAAATATTTATTTTTAT
16835400 TCAATTAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (30 bp):
AATTGAATCATAAAATATTTATTTTTATCG
Found at i:16835820 original size:22 final size:22
Alignment explanation
Indices: 16835792--16835836 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16835782 TTTTAAACCG
*
16835792 TATTATTTTATATATTTTATTA
1 TATTATTTTATATATTATATTA
* *
16835814 TATTATTTTTTGTATTATATTA
1 TATTATTTTATATATTATATTA
16835836 T
1 T
16835837 GTCTAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TATTATTTTATATATTATATTA
Found at i:16835829 original size:17 final size:18
Alignment explanation
Indices: 16835791--16835836 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
16835781 ATTTTAAACC
*
16835791 GTATTATTTTATATATTT
1 GTATTATATTATATATTT
*
16835809 -TATTATATTAT-TTTTT
1 GTATTATATTATATATTT
16835825 GTATTATATTAT
1 GTATTATATTAT
16835837 GTCTAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
GTATTATATTATATATTT
Done.