Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 165 of 190
Found at i:26797235 original size:18 final size:18
Alignment explanation
Indices: 26797196--26797282 Score: 58
Period size: 18 Copynumber: 4.9 Consensus size: 18
26797186 TTATTTTAAG
* * *
26797196 TATTTTTATATTATATAA
1 TATTTTAATATTAAATAT
26797214 TATTTTAATATTAAATAT
1 TATTTTAATATTAAATAT
* *
26797232 TATTATTAACA-TATA-AT
1 TATT-TTAATATTAAATAT
26797249 TATTCTTGAATATT-AATA-
1 TATT-TT-AATATTAAATAT
*
26797267 -ATTTTAATAATAAATA
1 TATTTTAATATTAAATA
26797283 ATTTCATTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
15 5 0.09
16 6 0.11
17 11 0.20
18 26 0.47
19 7 0.13
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (18 bp):
TATTTTAATATTAAATAT
Found at i:26797460 original size:20 final size:20
Alignment explanation
Indices: 26797430--26797485 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
26797420 AATTTTTTAT
*
26797430 TTTTTTCAAAAAATGTAAATA
1 TTTTTT-AAAAAATATAAATA
*
26797451 TTTTTTAAAAATTATAAATA
1 TTTTTTAAAAAATATAAATA
* * *
26797471 CTTTCTAAAATATAT
1 TTTTTTAAAAAATAT
26797486 TTTTTGAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 23 0.79
21 6 0.21
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (20 bp):
TTTTTTAAAAAATATAAATA
Found at i:26802631 original size:20 final size:20
Alignment explanation
Indices: 26802594--26802646 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 20
26802584 ACTCGAAATT
26802594 AATAAAATATTATTTTTTTAA
1 AATAAAATATTA-TTTTTTAA
26802615 ATATAAAATATTA-TTTTTAA
1 A-ATAAAATATTATTTTTTAA
26802635 AATATAAATATT
1 AATA-AAATATT
26802647 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.10
20 15 0.50
21 1 0.03
22 11 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATAAAATATTATTTTTTAA
Found at i:26802637 original size:21 final size:22
Alignment explanation
Indices: 26802595--26802646 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
26802585 CTCGAAATTA
*
26802595 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTATTTTTTAAAAT
26802617 ATAAAATATTA-TTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
26802638 AT-AAATATT
1 ATAAAATATT
26802647 TAAATATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:26802652 original size:8 final size:8
Alignment explanation
Indices: 26802632--26802676 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
26802622 ATATTATTTT
26802632 TAAA-ATA
1 TAAATATA
*
26802639 TAAATATT
1 TAAATATA
26802647 TAAATATA
1 TAAATATA
*
26802655 TAATTATA
1 TAAATATA
26802663 TAAATATA
1 TAAATATA
26802671 TAAATA
1 TAAATA
26802677 AAAAATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
7 4 0.12
8 29 0.88
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAATATA
Found at i:26802683 original size:24 final size:24
Alignment explanation
Indices: 26802636--26802684 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
26802626 TATTTTTAAA
* * *
26802636 ATATAAATATTTAAATATATAATT
1 ATATAAATATATAAATAAAAAATT
26802660 ATATAAATATATAAATAAAAAATT
1 ATATAAATATATAAATAAAAAATT
26802684 A
1 A
26802685 ATTTAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATAAATATATAAATAAAAAATT
Found at i:26806825 original size:23 final size:22
Alignment explanation
Indices: 26806773--26806816 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
26806763 TTAAATTTTA
26806773 AATTTCTTA-TAAATAAATATAT
1 AATTT-TTATTAAATAAATATAT
26806795 AATTTTTATTAAA-AAATATAT
1 AATTTTTATTAAATAAATATAT
26806816 A
1 A
26806817 TGTTATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTTTTATTAAATAAATATAT
Found at i:26807013 original size:23 final size:23
Alignment explanation
Indices: 26806987--26807037 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
26806977 TTTAATATAT
*
26806987 AAAAAATTATCATTAATTTATTA
1 AAAAAATTATCACTAATTTATTA
* *
26807010 AAAAATTTATTACTAATTTATTA
1 AAAAAATTATCACTAATTTATTA
26807033 AAAAA
1 AAAAA
26807038 CTTTAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAAAATTATCACTAATTTATTA
Found at i:26807018 original size:12 final size:12
Alignment explanation
Indices: 26807001--26807042 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
26806991 AATTATCATT
26807001 AATTTATTAAAA
1 AATTTATTAAAA
**
26807013 AATTTATT-ACT
1 AATTTATTAAAA
26807024 AATTTATTAAAA
1 AATTTATTAAAA
26807036 AACTTTA
1 AA-TTTA
26807043 AATAATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
11 9 0.38
12 11 0.46
13 4 0.17
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTTATTAAAA
Found at i:26807048 original size:22 final size:22
Alignment explanation
Indices: 26806986--26807059 Score: 73
Period size: 23 Copynumber: 3.4 Consensus size: 22
26806976 TTTTAATATA
*
26806986 TAAAAAA-TTATCATTAATTTAT
1 TAAAAAATTTAT-AATAATTTAT
*
26807008 TAAAAAATTTATTACTAATTTAT
1 TAAAAAATTTA-TAATAATTTAT
*
26807031 TAAAAAACTTTA-AATAA-TTAA
1 TAAAAAA-TTTATAATAATTTAT
26807052 TAAAAAAT
1 TAAAAAAT
26807060 ATTTTATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.02
21 10 0.22
22 11 0.24
23 19 0.41
24 5 0.11
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAAAATTTATAATAATTTAT
Found at i:26810152 original size:2 final size:2
Alignment explanation
Indices: 26810145--26810178 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
26810135 GGGGCAGCTA
26810145 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26810179 TTAGTTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26812325 original size:16 final size:18
Alignment explanation
Indices: 26812302--26812349 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
26812292 ATTAATCAAA
26812302 ATTAATATTTTTTAAATT
1 ATTAATATTTTTTAAATT
**
26812320 -TT-ATATAATTTAAATT
1 ATTAATATTTTTTAAATT
26812336 ATTAATATATTTTT
1 ATTAATAT-TTTTT
26812350 TAAAGATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
16 12 0.52
17 4 0.17
18 4 0.17
19 3 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTAATATTTTTTAAATT
Found at i:26815530 original size:3 final size:3
Alignment explanation
Indices: 26815511--26815551 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
26815501 GTCTCCCGCC
* * *
26815511 TCT TCG TCT TGT TCT TCT TCT TCT TCT TCT TCG TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
26815552 AATGGCATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.32, G:0.07, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:26819107 original size:35 final size:35
Alignment explanation
Indices: 26819063--26819132 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
26819053 AATTTGTGCA
*
26819063 TTCTGATTGTCTGTCAAAACATAACAGTAAATTCT
1 TTCTAATTGTCTGTCAAAACATAACAGTAAATTCT
26819098 TTCTAATTGTCTGTCAAAACATAACAGTAAATTCT
1 TTCTAATTGTCTGTCAAAACATAACAGTAAATTCT
26819133 CGTTGCTAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (35 bp):
TTCTAATTGTCTGTCAAAACATAACAGTAAATTCT
Found at i:26820492 original size:6 final size:6
Alignment explanation
Indices: 26820483--26820540 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
26820473 TGTTGTTACT
* * * * * *
26820483 GGTGCT GGTGCC GGTTCT GGTGCC AGTGCC GGTGCC GGTGCT GGAGCC
1 GGTGCC GGTGCC GGTGCC GGTGCC GGTGCC GGTGCC GGTGCC GGTGCC
26820531 GGTGCC GGTG
1 GGTGCC GGTG
26820541 TCATCTCAGG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.03, C:0.26, G:0.48, T:0.22
Consensus pattern (6 bp):
GGTGCC
Found at i:26820504 original size:12 final size:12
Alignment explanation
Indices: 26820483--26820540 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
26820473 TGTTGTTACT
26820483 GGTGCTGGTGCC
1 GGTGCTGGTGCC
*
26820495 GGTTCTGGTGCC
1 GGTGCTGGTGCC
* *
26820507 AGTGCCGGTGCC
1 GGTGCTGGTGCC
*
26820519 GGTGCTGGAGCC
1 GGTGCTGGTGCC
*
26820531 GGTGCCGGTG
1 GGTGCTGGTG
26820541 TCATCTCAGG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.03, C:0.26, G:0.48, T:0.22
Consensus pattern (12 bp):
GGTGCTGGTGCC
Found at i:26823168 original size:16 final size:18
Alignment explanation
Indices: 26823137--26823169 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26823127 TTAGAATTTG
26823137 ATAAAATAAAAGATAATT
1 ATAAAATAAAAGATAATT
26823155 ATAAAA-AAAA-ATAAT
1 ATAAAATAAAAGATAAT
26823170 GATTTAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
ATAAAATAAAAGATAATT
Found at i:26829574 original size:21 final size:20
Alignment explanation
Indices: 26829550--26829588 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26829540 ATTTTTAAAA
*
26829550 ATTATAAAAATATTTTTTTTC
1 ATTA-AAAAATAATTTTTTTC
26829571 ATTAAAAAATAATTTTTT
1 ATTAAAAAATAATTTTTT
26829589 AATTTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTAAAAAATAATTTTTTTC
Found at i:26830190 original size:17 final size:17
Alignment explanation
Indices: 26830170--26830204 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26830160 AACATTGAAG
26830170 AAATAAATAAAACAAAA
1 AAATAAATAAAACAAAA
* *
26830187 AAATATATAATACAAAA
1 AAATAAATAAAACAAAA
26830204 A
1 A
26830205 GTTAATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (17 bp):
AAATAAATAAAACAAAA
Found at i:26830566 original size:27 final size:28
Alignment explanation
Indices: 26830520--26830575 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
26830510 TTTTGATTTG
*
26830520 AATTTAAATAATTATCTAAA-AATATTA
1 AATTTAAATAATTATCTAAATAAAATTA
26830547 AATTTAAATAATTTAT-TAAATAAAATTA
1 AATTTAAATAA-TTATCTAAATAAAATTA
26830575 A
1 A
26830576 TTGATAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (28 bp):
AATTTAAATAATTATCTAAATAAAATTA
Found at i:26832359 original size:22 final size:24
Alignment explanation
Indices: 26832310--26832360 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
26832300 TGCATTGTGC
* *
26832310 TAAAAAAGTTAATTTTACTTTAATT
1 TAAAAAAGTTAATGTTA-TTTAAGT
26832335 TAAAAAA-TTAATGTT-TTTAAGT
1 TAAAAAAGTTAATGTTATTTAAGT
26832357 TAAA
1 TAAA
26832361 TATGAAGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
24 7 0.29
25 7 0.29
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (24 bp):
TAAAAAAGTTAATGTTATTTAAGT
Found at i:26832537 original size:11 final size:11
Alignment explanation
Indices: 26832521--26832545 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26832511 TCATTTTCGT
26832521 TTTTTTTATCA
1 TTTTTTTATCA
26832532 TTTTTTTATCA
1 TTTTTTTATCA
26832543 TTT
1 TTT
26832546 ACGATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTATCA
Found at i:26833433 original size:25 final size:25
Alignment explanation
Indices: 26833397--26833470 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
26833387 ATTAAAAAAA
*
26833397 AAAAATAATTATTAAAATTATA-ATT
1 AAAAATATTTATTAAAATTATATA-T
* *
26833422 ACAAATATTTATAAAAATT-TATAT
1 AAAAATATTTATTAAAATTATATAT
*
26833446 AAAAAAATTTTATTAAAATTA-ATAT
1 AAAAATA-TTTATTAAAATTATATAT
26833471 TTAAATTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
24 8 0.20
25 32 0.80
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAAATATTTATTAAAATTATATAT
Found at i:26840644 original size:41 final size:42
Alignment explanation
Indices: 26840599--26840689 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 42
26840589 AAAAATTATA
*
26840599 TATTAATTCATATTAATT-ATATAATAACA-AATTTATTTACT
1 TATTAATTCATAAT-ATTAATATAATAACAGAATTTATTTACT
* * ** *
26840640 TATTAATTCGTAATATTAATATAATAATAGCTTTTATTTATT
1 TATTAATTCATAATATTAATATAATAACAGAATTTATTTACT
26840682 TATTAATT
1 TATTAATT
26840690 TAGCATATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 3 0.07
41 22 0.52
42 17 0.40
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (42 bp):
TATTAATTCATAATATTAATATAATAACAGAATTTATTTACT
Found at i:26840724 original size:24 final size:24
Alignment explanation
Indices: 26840697--26840755 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
26840687 ATTTAGCATA
26840697 TAATAATAAAATTTATTT-ATATAT
1 TAATAATAAAA-TTATTTCATATAT
* *
26840721 TAATTAACAAAATTATTTCATATTT
1 TAA-TAATAAAATTATTTCATATAT
26840746 TAA-AATAAAA
1 TAATAATAAAA
26840756 ATGAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 6 0.20
24 9 0.30
25 15 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (24 bp):
TAATAATAAAATTATTTCATATAT
Found at i:26840940 original size:16 final size:15
Alignment explanation
Indices: 26840918--26840973 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 15
26840908 AAATATTAAG
26840918 CTTCTTCTCTCTTTTT
1 CTTCTTCTCT-TTTTT
*
26840934 GTTCTTC-CTATATTTT
1 CTTCTTCTCT-T-TTTT
26840950 CTTTCTTCTCTTTTTT
1 C-TTCTTCTCTTTTTT
26840966 CTTCTTCT
1 CTTCTTCT
26840974 TCTCATTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 10 0.29
16 15 0.44
17 7 0.21
18 2 0.06
ACGTcount: A:0.04, C:0.27, G:0.02, T:0.68
Consensus pattern (15 bp):
CTTCTTCTCTTTTTT
Found at i:26840982 original size:12 final size:12
Alignment explanation
Indices: 26840966--26841013 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
26840956 TCTCTTTTTT
26840966 CTTCTTCTTCTC
1 CTTCTTCTTCTC
* *
26840978 ATTCTTTTTCTC
1 CTTCTTCTTCTC
26840990 CTTCCTTCTTC-C
1 CTT-CTTCTTCTC
*
26841002 CTTTTTCTTCTC
1 CTTCTTCTTCTC
26841014 TTCAAACCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
11 6 0.21
12 17 0.59
13 6 0.21
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (12 bp):
CTTCTTCTTCTC
Found at i:26840988 original size:18 final size:17
Alignment explanation
Indices: 26840918--26840999 Score: 64
Period size: 18 Copynumber: 4.8 Consensus size: 17
26840908 AAATATTAAG
26840918 CTTCTTCTC-TCTTTTT
1 CTTCTTCTCTTCTTTTT
* *
26840934 GTTCTTC-CTAT-ATTTT
1 CTTCTTCTCT-TCTTTTT
*
26840950 CTTTCTTCTCTTTTTTCTT
1 C-TTCTTCTCTTCTTT-TT
26840969 CTTCTTCTCATTCTTTTT
1 CTTCTTCTC-TTCTTTTT
*
26840987 CTCCTTC-CTTCTT
1 CTTCTTCTCTTCTT
26841000 CCCTTTTTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
15 1 0.02
16 15 0.28
17 9 0.17
18 20 0.38
19 8 0.15
ACGTcount: A:0.04, C:0.29, G:0.01, T:0.66
Consensus pattern (17 bp):
CTTCTTCTCTTCTTTTT
Found at i:26843709 original size:15 final size:17
Alignment explanation
Indices: 26843680--26843719 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
26843670 ATTTATTAAT
26843680 AAATAAAATCACAAG-A
1 AAATAAAATCACAAGAA
26843696 AAATAAAA-CACAAGTAA
1 AAATAAAATCACAAG-AA
26843713 AAATAAA
1 AAATAAA
26843720 TAAAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.27
16 8 0.36
17 8 0.36
ACGTcount: A:0.72, C:0.10, G:0.05, T:0.12
Consensus pattern (17 bp):
AAATAAAATCACAAGAA
Found at i:26844980 original size:16 final size:17
Alignment explanation
Indices: 26844961--26844994 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
26844951 AGAGAAAAAT
*
26844961 AATAATAATA-AAATAA
1 AATAATAAGATAAATAA
26844977 AATAATAAGATAAATAA
1 AATAATAAGATAAATAA
26844994 A
1 A
26844995 TACAATCCAA
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:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
AATAATAAGATAAATAA
Found at i:26844996 original size:13 final size:13
Alignment explanation
Indices: 26844956--26844990 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
26844946 ATAAAAGAGA
26844956 AAAATAATAATAAT
1 AAAATAA-AATAAT
26844970 AAAATAAAATAAT
1 AAAATAAAATAAT
*
26844983 AAGATAAA
1 AAAATAAA
26844991 TAAATACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:26845624 original size:18 final size:17
Alignment explanation
Indices: 26845601--26845654 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
26845591 AAATTTGCAC
26845601 AATTTTCAAATTCACAAG
1 AATTTT-AAATTCACAAG
** * *
26845619 AATTTTAGTTTCGCAAT
1 AATTTTAAATTCACAAG
26845636 AATTTTTAAATTCACAAG
1 AA-TTTTAAATTCACAAG
26845654 A
1 A
26845655 CACAAAGATT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (17 bp):
AATTTTAAATTCACAAG
Found at i:26845694 original size:174 final size:172
Alignment explanation
Indices: 26845331--26845671 Score: 416
Period size: 174 Copynumber: 2.0 Consensus size: 172
26845321 GCAATTCAAT
* *
26845331 GATTCGCAAGATTTCAAAAGGTTCAACATTTCAAAGATTCACAACATTTTTAGTTTTGCAAAAAT
1 GATTTGCAAGATTTC-AAAGGTTCAACATTTCAAAGATTCACAACATTTTCAGTTTTGCAAAAAT
* *
26845396 TTAAAGATTCGAAAGATGAAAAAATTTGCACAATTTTCAAATTATTCAAAAATTTCAATTTTATA
65 TTAAAGATTCGAAAGATGAAAAAATTTGCACAATTTTCAAATTA-TCAAAAATTTCAATTTCACA
* ***** *
26845461 AGAATTTTCAAATTCGCAAGATTTTTAGATTTGTAAGACACAAA
129 AGAATTTTCAAATTCACAAGACACAAAGATTCGTAAGACACAAA
* * * * *
26845505 GATTTGCAAGATTTCAAAGCTTTCAACATTTTAAAGATTCGCAAGATTTTCAGTTTTGCAAGAAT
1 GATTTGCAAGATTTCAAAG-GTTCAACATTTCAAAGATTCACAACATTTTCAGTTTTGCAAAAAT
* * * * *
26845570 TTAAAGATTCGTAAGACT-AAAAAATTTGCACAATTTTCAAATTCA-CAAGAATTTTAGTTTCGC
65 TTAAAGATTCGAAAGA-TGAAAAAATTTGCACAATTTTCAAATT-ATCAAAAATTTCAATTTCAC
* *
26845633 AATAATTTTTAAATTCACAAGACACAAAGATTCGTAAGA
128 AAGAATTTTCAAATTCACAAGACACAAAGATTCGTAAGA
26845672 TTTTCAGATT
Statistics
Matches: 141, Mismatches: 23, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
173 46 0.33
174 93 0.66
175 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (172 bp):
GATTTGCAAGATTTCAAAGGTTCAACATTTCAAAGATTCACAACATTTTCAGTTTTGCAAAAATT
TAAAGATTCGAAAGATGAAAAAATTTGCACAATTTTCAAATTATCAAAAATTTCAATTTCACAAG
AATTTTCAAATTCACAAGACACAAAGATTCGTAAGACACAAA
Found at i:26845877 original size:17 final size:17
Alignment explanation
Indices: 26845857--26845917 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
26845847 TTCGCAAGAT
26845857 TTTCAAATTTTTTAAGG
1 TTTCAAATTTTTTAAGG
** *
26845874 TTTCAAA-TTTGCAAGAT
1 TTTCAAATTTTTTAAG-G
* *
26845891 TTTTAGATTTTTTAAGG
1 TTTCAAATTTTTTAAGG
26845908 TTTCAAATTT
1 TTTCAAATTT
26845918 GCAAGAATTT
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
16 6 0.19
17 20 0.62
18 6 0.19
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (17 bp):
TTTCAAATTTTTTAAGG
Found at i:26845878 original size:34 final size:34
Alignment explanation
Indices: 26845840--26845928 Score: 133
Period size: 34 Copynumber: 2.6 Consensus size: 34
26845830 TTCACCAGAA
* *
26845840 TTTCATATTCGCAAGATTTTCAAATTTTTTAAGG
1 TTTCAAATTTGCAAGATTTTCAAATTTTTTAAGG
* *
26845874 TTTCAAATTTGCAAGATTTTTAGATTTTTTAAGG
1 TTTCAAATTTGCAAGATTTTCAAATTTTTTAAGG
26845908 TTTCAAATTTGCAAGAATTTT
1 TTTCAAATTTGCAAG-ATTTT
26845929 TTATTTGCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 45 0.90
35 5 0.10
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (34 bp):
TTTCAAATTTGCAAGATTTTCAAATTTTTTAAGG
Found at i:26845934 original size:17 final size:17
Alignment explanation
Indices: 26845914--26845980 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
26845904 AAGGTTTCAA
26845914 ATTTGCAAGAATTTTTT
1 ATTTGCAAGAATTTTTT
26845931 ATTTGCAAGAATTTTTGT
1 ATTTGCAAGAATTTTT-T
* * *
26845949 -TTTACATGAATTTTCAT
1 ATTTGCAAGAATTTT-TT
26845966 ATTTGCAAG-ATTTTT
1 ATTTGCAAGAATTTTT
26845981 AGACACAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
17 34 0.83
18 7 0.17
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.52
Consensus pattern (17 bp):
ATTTGCAAGAATTTTTT
Found at i:26846040 original size:17 final size:17
Alignment explanation
Indices: 26846018--26846070 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
26846008 ATTCGTAAGG
*
26846018 TTTAGATTTGTAAGAAT
1 TTTAGATTTGCAAGAAT
* *
26846035 TTTAGATTGGCAAAAATT
1 TTTAGATTTGCAAGAA-T
26846053 TTTA-ATTTGCAAGAAT
1 TTTAGATTTGCAAGAAT
26846069 TT
1 TT
26846071 CATTCCTAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 3 0.10
17 22 0.73
18 5 0.17
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (17 bp):
TTTAGATTTGCAAGAAT
Found at i:26846118 original size:17 final size:17
Alignment explanation
Indices: 26846056--26846109 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
26846046 AAAAATTTTT
*
26846056 AATTTGCAAGAATTTC-
1 AATTCGCAAGAATTTCA
26846072 -ATTC-CTAAGAA-TTCA
1 AATTCGC-AAGAATTTCA
*
26846087 GATTCGCAAGAATTTCA
1 AATTCGCAAGAATTTCA
26846104 AATTCG
1 AATTCG
26846110 TAATAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 4 0.13
15 8 0.26
16 9 0.29
17 10 0.32
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (17 bp):
AATTCGCAAGAATTTCA
Found at i:26846163 original size:17 final size:16
Alignment explanation
Indices: 26846136--26846168 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
26846126 ATAAGACTTT
26846136 GATTCTAAAAATTTCA
1 GATTCTAAAAATTTCA
26846152 GATTCGTAAAAATTTCA
1 GATTC-TAAAAATTTCA
26846169 TATTAGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (16 bp):
GATTCTAAAAATTTCA
Found at i:26846177 original size:17 final size:17
Alignment explanation
Indices: 26846141--26846177 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
26846131 ACTTTGATTC
*
26846141 TAAAAATTTCAGATTCG
1 TAAAAATTTCAGATTAG
*
26846158 TAAAAATTTCATATTAG
1 TAAAAATTTCAGATTAG
26846175 TAA
1 TAA
26846178 GACACATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (17 bp):
TAAAAATTTCAGATTAG
Found at i:26848641 original size:23 final size:23
Alignment explanation
Indices: 26848609--26848663 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
26848599 TCTTAGTACA
26848609 TAAAA-AAATCCTAGCATTACTC
1 TAAAAGAAATCCTAGCATTACTC
26848631 TAAAAGAAATCCTAGCATTACTC
1 TAAAAGAAATCCTAGCATTACTC
26848654 TAAAAGAAAT
1 TAAAAGAAAT
26848664 TCAAAAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.16
23 27 0.84
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.25
Consensus pattern (23 bp):
TAAAAGAAATCCTAGCATTACTC
Found at i:26852128 original size:15 final size:15
Alignment explanation
Indices: 26852108--26852157 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
26852098 CATTTTTATA
26852108 AATAAATAAAATCAT
1 AATAAATAAAATCAT
*
26852123 AAT-AA-AAAATGCAA
1 AATAAATAAAAT-CAT
26852137 AATAAATAAATAT-AT
1 AATAAATAAA-ATCAT
26852152 AATAAA
1 AATAAA
26852158 ACATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 5 0.17
14 7 0.24
15 12 0.41
16 3 0.10
17 2 0.07
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (15 bp):
AATAAATAAAATCAT
Found at i:26852167 original size:29 final size:29
Alignment explanation
Indices: 26852102--26852172 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
26852092 GAGAACCATT
26852102 TTTATAAATAAATAAAATCATAATAAAAAA
1 TTTA-AAATAAATAAAATCATAATAAAAAA
** *
26852132 TGCAAAATAAATAAATAT-ATAATAAAACA
1 TTTAAAATAAATAAA-ATCATAATAAAAAA
26852161 TTTAAAAATAAA
1 TTT-AAAATAAA
26852173 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 22 0.65
30 12 0.35
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (29 bp):
TTTAAAATAAATAAAATCATAATAAAAAA
Found at i:26853401 original size:16 final size:17
Alignment explanation
Indices: 26853382--26853417 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
26853372 ATAAACGAAA
*
26853382 AAAATAATAATA-AAAT
1 AAAATAATAAGATAAAT
26853398 AAAATAATAAGATAAAT
1 AAAATAATAAGATAAAT
26853415 AAA
1 AAA
26853418 TACAATCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAAATAATAAGATAAAT
Found at i:26854041 original size:18 final size:19
Alignment explanation
Indices: 26854018--26854053 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26854008 TTTTATTAAG
*
26854018 GTTTTGTT-TGTTTTTATA
1 GTTTTGTTCTGATTTTATA
26854036 GTTTTGTTCTGATTTTAT
1 GTTTTGTTCTGATTTTAT
26854054 TGATGCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.03, G:0.17, T:0.69
Consensus pattern (19 bp):
GTTTTGTTCTGATTTTATA
Found at i:26856020 original size:13 final size:13
Alignment explanation
Indices: 26856002--26856026 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26855992 TTAATTCAAA
26856002 ATATATAAAAAAT
1 ATATATAAAAAAT
26856015 ATATATAAAAAA
1 ATATATAAAAAA
26856027 AAGCCCTTGA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
ATATATAAAAAAT
Found at i:26856711 original size:17 final size:17
Alignment explanation
Indices: 26856675--26856713 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
26856665 TAATAAAATT
* *
26856675 AAAAAATTCAAAATTCA
1 AAAAAATTAAAAATACA
*
26856692 AAAAAATTAAAAATAGA
1 AAAAAATTAAAAATACA
26856709 AAAAA
1 AAAAA
26856714 TCCTAAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAAATTAAAAATACA
Found at i:26856781 original size:9 final size:9
Alignment explanation
Indices: 26856769--26856807 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
26856759 TAAATTTTAC
*
26856769 AAAAAATCT
1 AAAAAATTT
26856778 AAAAAATTT
1 AAAAAATTT
*
26856787 ACAAAATTT
1 AAAAAATTT
*
26856796 AAAAAAATT
1 AAAAAATTT
26856805 AAA
1 AAA
26856808 TTAAAAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAAATTT
Found at i:26856878 original size:15 final size:16
Alignment explanation
Indices: 26856860--26856897 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
26856850 AAAGTAATAT
*
26856860 AAAAAATCAAAAA-TC
1 AAAAAATAAAAAACTC
26856875 AAAAAA-AAAAAACTC
1 AAAAAATAAAAAACTC
26856890 AAAAAATA
1 AAAAAATA
26856898 TTAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 5 0.25
15 14 0.70
16 1 0.05
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAAAATAAAAAACTC
Found at i:26857076 original size:18 final size:17
Alignment explanation
Indices: 26857044--26857109 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 17
26857034 TGTTCAAAAT
*
26857044 TTTTTGAAATGTTAAAGA
1 TTTTT-AAATTTTAAAGA
* *
26857062 TTTTTAATTCTTTAAATA
1 TTTTTAAAT-TTTAAAGA
26857080 TTTTTGAAATTTT-AAGA
1 TTTTT-AAATTTTAAAGA
26857097 TTTTTAAAATTTT
1 TTTTT-AAATTTT
26857110 TTTCTTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 18 0.45
18 19 0.47
19 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (17 bp):
TTTTTAAATTTTAAAGA
Found at i:26857099 original size:17 final size:18
Alignment explanation
Indices: 26857044--26857106 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 18
26857034 TGTTCAAAAT
* *
26857044 TTTTTGAAATGTTAAAGA
1 TTTTTGAAATCTTTAAGA
* *
26857062 TTTTT-AATTCTTTAAATA
1 TTTTTGAAATCTTT-AAGA
26857080 TTTTTGAAAT-TTTAAGA
1 TTTTTGAAATCTTTAAGA
*
26857097 TTTTTAAAAT
1 TTTTTGAAAT
26857107 TTTTTTCTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
17 17 0.47
18 16 0.44
19 3 0.08
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (18 bp):
TTTTTGAAATCTTTAAGA
Found at i:26857139 original size:16 final size:17
Alignment explanation
Indices: 26857114--26857151 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
26857104 AATTTTTTTC
*
26857114 TTTAT-TTTTTGAATTT
1 TTTATATTTTAGAATTT
*
26857130 TTTATATTTTAGATTTT
1 TTTATATTTTAGAATTT
26857147 TTTAT
1 TTTAT
26857152 GGTTTCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTATATTTTAGAATTT
Found at i:26857147 original size:17 final size:16
Alignment explanation
Indices: 26857109--26857151 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
26857099 TTTAAAATTT
*
26857109 TTTTCTTTATTTTTTGA
1 TTTT-TTTATTTTTAGA
*
26857126 ATTTTTTATATTTTAGA
1 TTTTTTTAT-TTTTAGA
26857143 TTTTTTTAT
1 TTTTTTTAT
26857152 GGTTTCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTTTTTATTTTTAGA
Found at i:26857188 original size:26 final size:27
Alignment explanation
Indices: 26857159--26857209 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
26857149 TATGGTTTCA
26857159 AAATT-TTCTCTTTTTGTCA-AATTTTG
1 AAATTGTTCTCTTTTT-TCATAATTTTG
*
26857185 AAATTGTTTTCTTTTTTCATAATTT
1 AAATTGTTCTCTTTTTTCATAATTT
26857210 ATTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.24, C:0.10, G:0.06, T:0.61
Consensus pattern (27 bp):
AAATTGTTCTCTTTTTTCATAATTTTG
Found at i:26857490 original size:10 final size:9
Alignment explanation
Indices: 26857461--26857534 Score: 51
Period size: 10 Copynumber: 7.7 Consensus size: 9
26857451 AACTATTTGG
26857461 AATTTTTTA
1 AATTTTTTA
26857470 TAATTTCTTTAA
1 -AATTT-TTT-A
26857482 AATTTTTT-
1 AATTTTTTA
* *
26857490 AGTTTTTCTT
1 AATTTTT-TA
26857500 AATTTTTTA
1 AATTTTTTA
*
26857509 GATTTTTTTA
1 -AATTTTTTA
*
26857519 GATTTTTTAA
1 AATTTTTT-A
26857529 AATTTT
1 AATTTT
26857535 ATTTTGATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
8 6 0.12
9 8 0.16
10 28 0.55
11 8 0.16
12 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (9 bp):
AATTTTTTA
Found at i:26857495 original size:29 final size:29
Alignment explanation
Indices: 26857404--26857534 Score: 90
Period size: 29 Copynumber: 4.5 Consensus size: 29
26857394 ATATTCTTGT
* * *
26857404 ATTTTTTGTCAATTGTTCAAAA-TTTTTAG
1 ATTTTTTAT-AATTTTTTAAAATTTTTTAG
* * * * * *
26857433 ATTTTTT-GAATTTTTCATAACTATTTGG
1 ATTTTTTATAATTTTTTAAAATTTTTTAG
26857461 AATTTTTTATAATTTCTTTAAAATTTTTTAG
1 -ATTTTTTATAATTT-TTTAAAATTTTTTAG
* *
26857492 -TTTTTCT-TAATTTTTTAGATTTTTTTAG
1 ATTTTT-TATAATTTTTTAAAATTTTTTAG
*
26857520 ATTTTTTAAAATTTT
1 ATTTTTTATAATTTT
26857535 ATTTTGATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
27 10 0.12
28 19 0.23
29 36 0.44
30 6 0.07
31 10 0.12
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.62
Consensus pattern (29 bp):
ATTTTTTATAATTTTTTAAAATTTTTTAG
Found at i:26857505 original size:9 final size:9
Alignment explanation
Indices: 26857483--26857527 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
26857473 TTTCTTTAAA
26857483 ATTTTTTAG
1 ATTTTTTAG
*
26857492 TTTTTCTTA-
1 ATTTT-TTAG
26857501 ATTTTTTAG
1 ATTTTTTAG
26857510 ATTTTTTTAG
1 A-TTTTTTAG
26857520 ATTTTTTA
1 ATTTTTTA
26857528 AAATTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 3 0.10
9 16 0.52
10 12 0.39
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (9 bp):
ATTTTTTAG
Found at i:26857527 original size:19 final size:18
Alignment explanation
Indices: 26857482--26857527 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 18
26857472 ATTTCTTTAA
26857482 AATTTTTTAGTTTTTCTT
1 AATTTTTTAGTTTTTCTT
26857500 AATTTTTTAGATTTTT-TT
1 AATTTTTTAG-TTTTTCTT
26857518 AGATTTTTTA
1 A-ATTTTTTA
26857528 AAATTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.70
Consensus pattern (18 bp):
AATTTTTTAGTTTTTCTT
Found at i:26857534 original size:19 final size:18
Alignment explanation
Indices: 26857461--26857527 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 18
26857451 AACTATTTGG
*
26857461 AATTTTTTATAATTTCTTTAA
1 AATTTTTTA-GATTT-TTT-A
*
26857482 AATTTTTTAG-TTTTTCTT
1 AATTTTTTAGATTTTT-TA
26857500 AATTTTTTAGATTTTTTTA
1 AATTTTTTAGA-TTTTTTA
*
26857519 GATTTTTTA
1 AATTTTTTA
26857528 AAATTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 12 0.31
19 13 0.33
20 5 0.13
21 9 0.23
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.67
Consensus pattern (18 bp):
AATTTTTTAGATTTTTTA
Found at i:26857851 original size:41 final size:41
Alignment explanation
Indices: 26857796--26857874 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 41
26857786 TAAAATATTT
*
26857796 ATAAAATATTATTTTTAATATAAATT-ATATCTT-AATTATAC
1 ATAAAATAGTATTTTT-AT-TAAATTAATATCTTGAATTATAC
* *
26857837 ATAATATAGTATTTTTATTAAGTTAATATCTTGAATTA
1 ATAAAATAGTATTTTTATTAAATTAATATCTTGAATTA
26857875 AGATACTGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 5 0.15
40 9 0.27
41 19 0.58
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (41 bp):
ATAAAATAGTATTTTTATTAAATTAATATCTTGAATTATAC
Found at i:26859916 original size:18 final size:20
Alignment explanation
Indices: 26859905--26859949 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 20
26859895 AATAATAATT
26859905 TATATTAAAATATATTAAAA
1 TATATTAAAATATATTAAAA
26859925 TATATTAAAATTTTATATTAAAA
1 TATATTAAAA---TATATTAAAA
26859948 TA
1 TA
26859950 ATATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
23 12 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TATATTAAAATATATTAAAA
Found at i:26859927 original size:8 final size:10
Alignment explanation
Indices: 26859905--26859949 Score: 63
Period size: 10 Copynumber: 4.2 Consensus size: 10
26859895 AATAATAATT
26859905 TATATTAAAA
1 TATATTAAAA
26859915 TATATTAAAA
1 TATATTAAAA
26859925 TATATTAAAA
1 TATATTAAAA
26859935 TTTTATATTAAAA
1 ---TATATTAAAA
26859948 TA
1 TA
26859950 ATATATATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 22 0.69
13 10 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TATATTAAAA
Found at i:26859965 original size:14 final size:13
Alignment explanation
Indices: 26859923--26859966 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
26859913 AATATATTAA
26859923 AATATATTAAAAT
1 AATATATTAAAAT
**
26859936 TTTATATTAAAAT
1 AATATATTAAAAT
*
26859949 AATATATATAAATT
1 AATATAT-TAAAAT
26859963 AATA
1 AATA
26859967 ATCAATAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:26864580 original size:19 final size:19
Alignment explanation
Indices: 26864556--26864605 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
26864546 GATAAGTTAA
26864556 TAAAAAATATTATTGTTTT
1 TAAAAAATATTATTGTTTT
*
26864575 TAAAAAA-ATTTATTTTTTT
1 TAAAAAATA-TTATTGTTTT
**
26864594 TTTAAAATATTA
1 TAAAAAATATTA
26864606 ATATAACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 24 0.92
20 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAAAAAATATTATTGTTTT
Found at i:26864592 original size:18 final size:20
Alignment explanation
Indices: 26864557--26864593 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26864547 ATAAGTTAAT
26864557 AAAAAATATTATTGTTTTTA
1 AAAAAATATTATTGTTTTTA
26864577 AAAAAAT-TTATT-TTTTT
1 AAAAAATATTATTGTTTTT
26864594 TTTAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
AAAAAATATTATTGTTTTTA
Found at i:26864594 original size:20 final size:21
Alignment explanation
Indices: 26864557--26864600 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
26864547 ATAAGTTAAT
26864557 AAAAAATATTA-TTGTTTTTA
1 AAAAAATATTATTTGTTTTTA
* *
26864577 AAAAAAT-TTATTTTTTTTTT
1 AAAAAATATTATTTGTTTTTA
26864597 AAAA
1 AAAA
26864601 TATTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
AAAAAATATTATTTGTTTTTA
Found at i:26864773 original size:15 final size:15
Alignment explanation
Indices: 26864755--26864808 Score: 81
Period size: 15 Copynumber: 3.5 Consensus size: 15
26864745 TTATTATTTT
26864755 TATATTATTTATTAA
1 TATATTATTTATTAA
* *
26864770 TATATTATATTAATAG
1 TATATTAT-TTATTAA
26864786 TATATTATTTATTAA
1 TATATTATTTATTAA
26864801 TATATTAT
1 TATATTAT
26864809 AATATTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 21 0.62
16 13 0.38
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:26865007 original size:13 final size:13
Alignment explanation
Indices: 26864989--26865013 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26864979 TAAAAATATC
26864989 AAAATTATTTTTT
1 AAAATTATTTTTT
26865002 AAAATTATTTTT
1 AAAATTATTTTT
26865014 CGCGAAACAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AAAATTATTTTTT
Found at i:26867510 original size:30 final size:30
Alignment explanation
Indices: 26867476--26867537 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
26867466 TTTGAATCGG
26867476 TTGAATCC-TTAAACATTCATTTTCACCAAA
1 TTGAA-CCTTTAAACATTCATTTTCACCAAA
* *
26867506 TTGAACCTTTAAACATTTATTTTCACCCAA
1 TTGAACCTTTAAACATTCATTTTCACCAAA
26867536 TT
1 TT
26867538 AAGCCCTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (30 bp):
TTGAACCTTTAAACATTCATTTTCACCAAA
Found at i:26871625 original size:38 final size:39
Alignment explanation
Indices: 26871583--26871665 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
26871573 TTTATTTACA
* * * *
26871583 TAAAATAA-AAAAATTAAATATTTTATTTTATTTTCTAC
1 TAAAATAATAAAAATTAAAGATTTAATTTCATTTTATAC
26871621 TAAAATAATAAAAATTAAAGATTTAATTTCATTTTATAC
1 TAAAATAATAAAAATTAAAGATTTAATTTCATTTTATAC
26871660 TAAAAT
1 TAAAAT
26871666 TTGATTACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 8 0.20
39 32 0.80
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (39 bp):
TAAAATAATAAAAATTAAAGATTTAATTTCATTTTATAC
Found at i:26871993 original size:16 final size:16
Alignment explanation
Indices: 26871974--26872038 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 16
26871964 TTTACCCAAC
26871974 CTAAATTTAAATTGAT
1 CTAAATTTAAATTGAT
* *
26871990 CTAAATTAAAATTAAT
1 CTAAATTTAAATTGAT
* *
26872006 -TAAAATTTAACTTTAT
1 CT-AAATTTAAATTGAT
* * *
26872022 TTATATTTGAATTGAT
1 CTAAATTTAAATTGAT
26872038 C
1 C
26872039 CAAGTTTCAA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
15 1 0.03
16 35 0.95
17 1 0.03
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (16 bp):
CTAAATTTAAATTGAT
Found at i:26875307 original size:2 final size:2
Alignment explanation
Indices: 26875300--26875340 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
26875290 GCAGTCTAAT
26875300 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
26875341 ATATATATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:26876101 original size:8 final size:9
Alignment explanation
Indices: 26876077--26876101 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26876067 AAAATATATA
26876077 AAATTTTTT
1 AAATTTTTT
26876086 AAATTTTTT
1 AAATTTTTT
26876095 AAATTTT
1 AAATTTT
26876102 GCATACTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
AAATTTTTT
Found at i:26877041 original size:21 final size:22
Alignment explanation
Indices: 26877010--26877051 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
26877000 CATGGACATC
26877010 TTATTGAATTTAAAATATTAAT
1 TTATTGAATTTAAAATATTAAT
*
26877032 TTATT-AATTTAAAGTATTAA
1 TTATTGAATTTAAAATATTAA
26877052 ATAATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
TTATTGAATTTAAAATATTAAT
Found at i:26877671 original size:18 final size:19
Alignment explanation
Indices: 26877650--26877694 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
26877640 TCTTATTTTA
26877650 AAAAAACAAAC-AAAAAAG
1 AAAAAACAAACTAAAAAAG
26877668 AAAAAA-AAACTAAAAAAG
1 AAAAAACAAACTAAAAAAG
26877686 AAAAAACAA
1 AAAAAACAA
26877695 GATGAAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.16
18 19 0.76
19 2 0.08
ACGTcount: A:0.84, C:0.09, G:0.04, T:0.02
Consensus pattern (19 bp):
AAAAAACAAACTAAAAAAG
Found at i:26878410 original size:140 final size:139
Alignment explanation
Indices: 26878218--26878501 Score: 500
Period size: 140 Copynumber: 2.0 Consensus size: 139
26878208 AAAAAAATTA
26878218 TTAAATATATTTTTAAAATAAAAAAGAAAAAAAAGGATAAAAAGCAAAAAAGATAAATCGATATA
1 TTAAATATATTTTTAAAATAAAAAAGAAAAAAAAGGATAAAAAGCAAAAAAGATAAATCGATATA
* *
26878283 AGTAAGTGCCATACGTAAAAATAAAATATTTAAAAATAT-T-TTTTTTATAATTCTAAAAACTAT
66 AATAAGTGCCATACGTAAAAATAAAA-ATATAAAAATATATATTTTTTATAATTCTAAAAACTAT
26878346 TTCTTAAATG
130 TTCTTAAATG
26878356 TTAAATATATTTTTAAAATTAAAAGAAGAAAAAAAAGGATAAAAAGCAAAAAAGATAAATCGATA
1 TTAAATATATTTTTAAAA-TAAAA-AAGAAAAAAAAGGATAAAAAGCAAAAAAGATAAATCGATA
26878421 TAAATAAGTGCCATACGTAAAAATAAAAATATAAAAATATATATTTTTTATAATTCTAAAAACTA
64 TAAATAAGTGCCATACGTAAAAATAAAAATATAAAAATATATATTTTTTATAATTCTAAAAACTA
*
26878486 TTTGTTAAATG
129 TTTCTTAAATG
26878497 TTAAA
1 TTAAA
26878502 AAAGAAAAAG
Statistics
Matches: 139, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
138 18 0.13
139 16 0.12
140 68 0.49
141 37 0.27
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.31
Consensus pattern (139 bp):
TTAAATATATTTTTAAAATAAAAAAGAAAAAAAAGGATAAAAAGCAAAAAAGATAAATCGATATA
AATAAGTGCCATACGTAAAAATAAAAATATAAAAATATATATTTTTTATAATTCTAAAAACTATT
TCTTAAATG
Found at i:26882083 original size:9 final size:9
Alignment explanation
Indices: 26882069--26882102 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
26882059 TTGTTCATAC
26882069 CATCAAAAT
1 CATCAAAAT
*
26882078 CATCAATAT
1 CATCAAAAT
*
26882087 CATCAAGAT
1 CATCAAAAT
26882096 CATCAAA
1 CATCAAA
26882103 GAAATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.50, C:0.24, G:0.03, T:0.24
Consensus pattern (9 bp):
CATCAAAAT
Found at i:26899976 original size:109 final size:109
Alignment explanation
Indices: 26899843--26900061 Score: 352
Period size: 109 Copynumber: 2.0 Consensus size: 109
26899833 ACCTCAGTTG
* *
26899843 TTATGCCTATTTAGTTTGTAATATGATTTAAGCTATTGCTAAAATTTGATCCAATGCTGT-TGA-
1 TTATGCCTATTTAGTTTGCAATATGATTTAAGCTATTGCTAAAATTTGATCCAATG-T-TATCAG
26899906 ATCCAAACAGAGAAGGGGCTATCAATGCTGACCATTTGAGAAAAAT
64 ATCCAAACAGAGAAGGGGCTATCAATGCTGACCATTTGAGAAAAAT
* *
26899952 TTATGCCTATTTAGTTTGCAATATGGTTTAAGTTATTGCTAAAATTTGATCCAATGTTATCAGAT
1 TTATGCCTATTTAGTTTGCAATATGATTTAAGCTATTGCTAAAATTTGATCCAATGTTATCAGAT
* *
26900017 CCAAACAGAGATGGTGCTATCAATGCTGACCATTTGAGAAAAAT
66 CCAAACAGAGAAGGGGCTATCAATGCTGACCATTTGAGAAAAAT
26900061 T
1 T
26900062 GAGTCTATTG
Statistics
Matches: 102, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 3 0.03
109 98 0.96
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (109 bp):
TTATGCCTATTTAGTTTGCAATATGATTTAAGCTATTGCTAAAATTTGATCCAATGTTATCAGAT
CCAAACAGAGAAGGGGCTATCAATGCTGACCATTTGAGAAAAAT
Found at i:26906567 original size:12 final size:12
Alignment explanation
Indices: 26906529--26906572 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
26906519 ATGAAATTTG
*
26906529 TAAAATTTTTAA
1 TAAAAATTTTAA
*
26906541 AAAAAATGATTTAA
1 TAAAAAT--TTTAA
26906555 TAAAAATTTTAA
1 TAAAAATTTTAA
26906567 TAAAAA
1 TAAAAA
26906573 ATCTAAACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 16 0.59
14 11 0.41
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
TAAAAATTTTAA
Found at i:26906751 original size:21 final size:22
Alignment explanation
Indices: 26906719--26906759 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
26906709 TATCTACCTA
26906719 AAAATATTTTTCAAAATTTATT
1 AAAATATTTTTCAAAATTTATT
*
26906741 AAAAT-TTTTTCAAATTTTA
1 AAAATATTTTTCAAAATTTA
26906760 CACACTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (22 bp):
AAAATATTTTTCAAAATTTATT
Found at i:26907855 original size:15 final size:15
Alignment explanation
Indices: 26907837--26907867 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26907827 AAAACTAAAA
26907837 TTTTAATAATTAATT
1 TTTTAATAATTAATT
*
26907852 TTTTAATATTTAATT
1 TTTTAATAATTAATT
26907867 T
1 T
26907868 GTTCAATTTA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTAATAATTAATT
Found at i:26908275 original size:36 final size:35
Alignment explanation
Indices: 26908202--26908275 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 35
26908192 TTTTACTAAT
26908202 TCGGTTCCTTGGCAAGACATTTAAACTTGGGAAATC
1 TCGGTTCCTTGGCAAGACATTTAAACTTGGG-AATC
*
26908238 TCGGTTCCTTGGCAGGACATTTAAAGACTTGGG-ATC
1 TCGGTTCCTTGGCAAGACATTT-AA-ACTTGGGAATC
26908274 TC
1 TC
26908276 TTGGGATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
36 26 0.74
37 2 0.06
38 7 0.20
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (35 bp):
TCGGTTCCTTGGCAAGACATTTAAACTTGGGAATC
Found at i:26908344 original size:61 final size:57
Alignment explanation
Indices: 26908241--26908401 Score: 250
Period size: 61 Copynumber: 2.8 Consensus size: 57
26908231 GGAAATCTCG
*
26908241 GTTCCTTGGCAGGACATTTAAAGACTTGGGATCTCTTGGGATTTTCGAACTAATTCA
1 GTTCTTTGGCAGGACATTTAAAGACTTGGGATCTCTTGGGATTTTCGAACTAATTCA
* * *
26908298 TTTCTTTGGCAGGACATTTAAAGGCAGGCTTGGGATCTCTCGGGATTTTCGAACTAATTCG
1 GTTCTTTGGCAGGACATTTAAA-G-A--CTTGGGATCTCTTGGGATTTTCGAACTAATTCA
26908359 GTTCTTTGGCAGGACATTTAAAGACTTGGGATCTCTTGGGATT
1 GTTCTTTGGCAGGACATTTAAAGACTTGGGATCTCTTGGGATT
26908402 ATTCCAAAGG
Statistics
Matches: 94, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
57 38 0.40
58 1 0.01
59 2 0.02
60 1 0.01
61 52 0.55
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (57 bp):
GTTCTTTGGCAGGACATTTAAAGACTTGGGATCTCTTGGGATTTTCGAACTAATTCA
Found at i:26916940 original size:49 final size:50
Alignment explanation
Indices: 26916887--26917098 Score: 170
Period size: 48 Copynumber: 4.3 Consensus size: 50
26916877 TTTTTGTTAT
* **
26916887 TTTTTATATTTTTTAGGGAAACACTCCCA-TTATTTATTCTTTTTAATAA
1 TTTTTCTATTTTTTAGGGAAACACTCCCATTTACCTATTCTTTTTAATAA
* * *
26916936 TTTTTCTATTTTCTAGGG-AA-ACTCTCATTTACCTATTCTTTTTAGTAA
1 TTTTTCTATTTTTTAGGGAAACACTCCCATTTACCTATTCTTTTTAATAA
* * * * *
26916984 TTTTTCTATTTTTTAGGAAAACA-TTCC-TTTACCGATTCATTCTAATAA
1 TTTTTCTATTTTTTAGGGAAACACTCCCATTTACCTATTCTTTTTAATAA
* ** * * *
26917032 TTTTCCTATACTTTTT-GATAAACATTCTCA-TTACTTATTAC-TTTTAATAA
1 TTTTTCTAT--TTTTTAGGGAAACACTCCCATTTACCTATT-CTTTTTAATAA
*
26917082 CTTTTCTATTTCTTTAG
1 TTTTTCTATTT-TTTAG
26917099 AAAAACACGA
Statistics
Matches: 129, Mismatches: 24, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
47 6 0.05
48 62 0.48
49 29 0.22
50 31 0.24
51 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (50 bp):
TTTTTCTATTTTTTAGGGAAACACTCCCATTTACCTATTCTTTTTAATAA
Found at i:26927221 original size:68 final size:68
Alignment explanation
Indices: 26927129--26927256 Score: 202
Period size: 68 Copynumber: 1.9 Consensus size: 68
26927119 TGGTTCTTGT
* *
26927129 TGTTAATGATATTGAATATGATGTTGATATTGAGGATGTTGTATTAATATTTTTGTTGTTGTTGT
1 TGTTAATGATATTGAATATAATGTTGATATTGAGGATGTTGTATTAATATTTTTATTGTTGTTGT
26927194 TGC
66 TGC
* ** *
26927197 TGTTGATGATATTGTGTATAATGTTGATATTGGGGATGTTGTATTAATATTTTTATTGTT
1 TGTTAATGATATTGAATATAATGTTGATATTGAGGATGTTGTATTAATATTTTTATTGTT
26927257 TTTATTGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 54 1.00
ACGTcount: A:0.23, C:0.01, G:0.23, T:0.52
Consensus pattern (68 bp):
TGTTAATGATATTGAATATAATGTTGATATTGAGGATGTTGTATTAATATTTTTATTGTTGTTGT
TGC
Found at i:26931410 original size:32 final size:31
Alignment explanation
Indices: 26931364--26931427 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
26931354 CACAATATGT
*
26931364 TTAAAAAGTATTATTAAAAGAAATATAAAGA
1 TTAAAAAATATTATTAAAAGAAATATAAAGA
*
26931395 TTAAAAATATATTATTGAAAGAAATATAAAGA
1 TTAAAAA-ATATTATTAAAAGAAATATAAAGA
26931427 T
1 T
26931428 AGCAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 7 0.23
32 23 0.77
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (31 bp):
TTAAAAAATATTATTAAAAGAAATATAAAGA
Found at i:26931547 original size:34 final size:34
Alignment explanation
Indices: 26931491--26931555 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
26931481 TCAAAAATGA
26931491 ATTTTCGAGAATTACAATGTATTCTT-AAAAACAT
1 ATTTTCGAGAATTACAATGTATT-TTCAAAAACAT
* *
26931525 ATTTTCGAGAGTTATGAA-GTATTTTCAAAAA
1 ATTTTCGAGAATTA-CAATGTATTTTCAAAAA
26931556 TGAAATTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 2 0.07
34 23 0.85
35 2 0.07
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (34 bp):
ATTTTCGAGAATTACAATGTATTTTCAAAAACAT
Found at i:26931640 original size:34 final size:34
Alignment explanation
Indices: 26931602--26931702 Score: 91
Period size: 34 Copynumber: 3.0 Consensus size: 34
26931592 GATCTCTGAC
*
26931602 AATTATATTGTATTTTTAAAAATTTATTTCTAAG
1 AATTATATTGTATTTATAAAAATTTATTTCTAAG
* * *
26931636 AATTATACTATATTCTCATAAACAAATT-TTT-T-AG
1 AATTATATTGTATT-T-ATAAA-AATTTATTTCTAAG
* **
26931670 AATTACATTGTATTTCCAAAAATTTATTTCTAA
1 AATTATATTGTATTTATAAAAATTTATTTCTAA
26931703 AAATACATCA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
31 4 0.08
32 6 0.12
33 2 0.04
34 26 0.51
35 2 0.04
36 7 0.14
37 4 0.08
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.48
Consensus pattern (34 bp):
AATTATATTGTATTTATAAAAATTTATTTCTAAG
Found at i:26931726 original size:35 final size:34
Alignment explanation
Indices: 26931687--26931761 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 34
26931677 TTGTATTTCC
* *
26931687 AAAAATTTATTTCTAAAAATACATCATAATTCTT
1 AAAAATATATTTCCAAAAATACATCATAATTCTT
* * *
26931721 GAAAAATATGTTTCCAAGAATACATTATAATTCTT
1 -AAAAATATATTTCCAAAAATACATCATAATTCTT
26931756 AAAAAT
1 AAAAAT
26931762 GAATTTATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 6 0.17
35 29 0.83
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (34 bp):
AAAAATATATTTCCAAAAATACATCATAATTCTT
Found at i:26933044 original size:10 final size:10
Alignment explanation
Indices: 26933025--26933097 Score: 80
Period size: 10 Copynumber: 7.5 Consensus size: 10
26933015 AAAAAATTTT
*
26933025 AAATTTTAAA
1 AAATTCTAAA
26933035 AAATTCTAAA
1 AAATTCTAAA
*
26933045 AAA-TAT-AA
1 AAATTCTAAA
26933053 AAATTCTGAAA
1 AAATTCT-AAA
26933064 AAATTCT-AA
1 AAATTCTAAA
*
26933073 AAATTTTAAA
1 AAATTCTAAA
*
26933083 AATTTCTAAA
1 AAATTCTAAA
26933093 AAATT
1 AAATT
26933098 TTTATAAACA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
8 5 0.10
9 12 0.23
10 26 0.50
11 9 0.17
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.34
Consensus pattern (10 bp):
AAATTCTAAA
Found at i:26933053 original size:19 final size:19
Alignment explanation
Indices: 26933033--26933077 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
26933023 TTAAATTTTA
26933033 AAAAATTCT-AAAAAATAT
1 AAAAATTCTGAAAAAATAT
*
26933051 AAAAATTCTGAAAAAATTCT
1 AAAAATTCTGAAAAAA-TAT
26933071 AAAAATT
1 AAAAATT
26933078 TTAAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 9 0.38
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATTCTGAAAAAATAT
Found at i:26933064 original size:29 final size:29
Alignment explanation
Indices: 26933025--26933097 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
26933015 AAAAAATTTT
26933025 AAATTT-TAAAAAATTCTAAAAAATATAA
1 AAATTTCTAAAAAATTCTAAAAAATATAA
* *
26933053 AAA-TTCTGAAAAAATTCTAAAAATTTTAA
1 AAATTTCT-AAAAAATTCTAAAAAATATAA
26933082 AAATTTCTAAAAAATT
1 AAATTTCTAAAAAATT
26933098 TTTATAAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 2 0.05
28 4 0.10
29 30 0.75
30 4 0.10
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.34
Consensus pattern (29 bp):
AAATTTCTAAAAAATTCTAAAAAATATAA
Found at i:26933161 original size:28 final size:28
Alignment explanation
Indices: 26933130--26933183 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
26933120 ATAAACCTAT
* *
26933130 AAAAAT-TCAAAATAATTTAAAATTTTAA
1 AAAAATAT-AAAAAAATTGAAAATTTTAA
*
26933158 AAAACTATAAAAAAATTGAAAATTTT
1 AAAAATATAAAAAAATTGAAAATTTT
26933184 TTTTTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 21 0.95
29 1 0.05
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (28 bp):
AAAAATATAAAAAAATTGAAAATTTTAA
Found at i:26933170 original size:19 final size:19
Alignment explanation
Indices: 26933033--26933170 Score: 72
Period size: 20 Copynumber: 7.3 Consensus size: 19
26933023 TTAAATTTTA
*
26933033 AAAAATTCTAAAAAA-TAT
1 AAAAATTTTAAAAAACTAT
* * *
26933051 AAAAATTCTGAAAAAATTCT
1 AAAAATT-TTAAAAAACTAT
*
26933071 AAAAATTTTAAAAATTTCTA-
1 AAAAATTTTAAAAA--ACTAT
* *
26933091 AAAAATTTTTATAAAC-AT
1 AAAAATTTTAAAAAACTAT
* * *
26933109 CAAACAAATTTATAAACCTAT
1 -AAA-AATTTTAAAAAACTAT
*
26933130 AAAAA-TTCAAAATAA-T-T
1 AAAAATTTTAAAA-AACTAT
*
26933147 TAAAATTTTAAAAAACTAT
1 AAAAATTTTAAAAAACTAT
26933166 AAAAA
1 AAAAA
26933171 AATTGAAAAT
Statistics
Matches: 87, Mismatches: 21, Indels: 23
0.66 0.16 0.18
Matches are distributed among these distances:
17 8 0.09
18 21 0.24
19 23 0.26
20 32 0.37
21 3 0.03
ACGTcount: A:0.59, C:0.08, G:0.01, T:0.32
Consensus pattern (19 bp):
AAAAATTTTAAAAAACTAT
Found at i:26933271 original size:10 final size:10
Alignment explanation
Indices: 26933256--26933302 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
26933246 ATAAGAAGTT
26933256 TAAAAAATTC
1 TAAAAAATTC
26933266 TAAAAAAATT-
1 T-AAAAAATTC
*
26933276 TGAAACAATTC
1 T-AAAAAATTC
26933287 TAAAAAATTC
1 TAAAAAATTC
26933297 TAAAAA
1 TAAAAA
26933303 TTATTGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.28
Consensus pattern (10 bp):
TAAAAAATTC
Found at i:26933310 original size:31 final size:31
Alignment explanation
Indices: 26933256--26933346 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 31
26933246 ATAAGAAGTT
*
26933256 TAAAAAATTCTAAAAA-AATTTGAAACAATT-C
1 TAAAAAATTCTAAAAATTA-TTGAAA-AATTAC
*
26933287 TAAAAAATTCTAAAAATTATTGAAAAAATTAT
1 TAAAAAATTCTAAAAATTATTG-AAAAATTAC
* *
26933319 TAAAAAAAT-TAAAATTTA-TGAAAAATTA
1 TAAAAAATTCTAAAAATTATTGAAAAATTA
26933347 AAAATATGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
29 8 0.15
30 2 0.04
31 31 0.58
32 12 0.23
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.32
Consensus pattern (31 bp):
TAAAAAATTCTAAAAATTATTGAAAAATTAC
Found at i:26933315 original size:12 final size:12
Alignment explanation
Indices: 26933298--26933329 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
26933288 AAAAAATTCT
*
26933298 AAAAATTATTGA
1 AAAAATTATTAA
26933310 AAAAATTATTAA
1 AAAAATTATTAA
26933322 AAAAATTA
1 AAAAATTA
26933330 AAATTTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (12 bp):
AAAAATTATTAA
Found at i:26933354 original size:16 final size:17
Alignment explanation
Indices: 26933322--26933357 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
26933312 AAATTATTAA
*
26933322 AAAAATTAAAATTTATG
1 AAAAATTAAAATATATG
26933339 AAAAATTAAAA-ATATG
1 AAAAATTAAAATATATG
26933355 AAA
1 AAA
26933358 TATTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAAATTAAAATATATG
Found at i:26933611 original size:11 final size:11
Alignment explanation
Indices: 26933597--26933643 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
26933587 TTTTTTTTTT
26933597 ATTTTTTAAAA
1 ATTTTTTAAAA
*
26933608 ATTTTTTAGAA
1 ATTTTTTAAAA
26933619 A---TTTAAAA
1 ATTTTTTAAAA
*
26933627 ATTTTTAAAAA
1 ATTTTTTAAAA
26933638 ATTTTT
1 ATTTTT
26933644 AAATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
8 7 0.23
11 23 0.77
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
ATTTTTTAAAA
Found at i:26933623 original size:19 final size:19
Alignment explanation
Indices: 26933601--26933652 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
26933591 TTTTTTATTT
*
26933601 TTTAAAAATTTTTTAGAAA
1 TTTAAAAATTTTTTAAAAA
*
26933620 TTTAAAAATTTTTAAAAAA
1 TTTAAAAATTTTTTAAAAA
**
26933639 TTTTTAAATTTTTT
1 TTTAAAAATTTTTT
26933653 TATATTTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTAAAAATTTTTTAAAAA
Found at i:26933761 original size:20 final size:20
Alignment explanation
Indices: 26933738--26933793 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
26933728 ATTATTTTAG
* *
26933738 AATTTTTAGAATTTTTGAAA
1 AATTTTTATAATTTTTAAAA
* *
26933758 AATTGTTATACTTTTTAAAA
1 AATTTTTATAATTTTTAAAA
*
26933778 AATTTTCATAATTTTT
1 AATTTTTATAATTTTT
26933794 TATTATTTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (20 bp):
AATTTTTATAATTTTTAAAA
Found at i:26933812 original size:19 final size:17
Alignment explanation
Indices: 26933790--26933833 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
26933780 TTTTCATAAT
26933790 TTTTTATTATTTTTAAAA
1 TTTTTATT-TTTTTAAAA
*
26933808 GTTTTGAATTTTTTTAAAA
1 -TTTT-TATTTTTTTAAAA
26933827 TTTTTAT
1 TTTTTAT
26933834 AGAATTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 4 0.18
19 13 0.59
20 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (17 bp):
TTTTTATTTTTTTAAAA
Found at i:26933860 original size:22 final size:22
Alignment explanation
Indices: 26933820--26933875 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
26933810 TTTGAATTTT
26933820 TTTAAAA-TTTTTATAGAATTG
1 TTTAAAATTTTTTATAGAATTG
* * *
26933841 TTT-ATATTTTTTATTTGAATTT
1 TTTAAAATTTTTTA-TAGAATTG
26933863 TTTAAAATTTTTT
1 TTTAAAATTTTTT
26933876 GAATTTTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 9 0.32
22 9 0.32
23 8 0.29
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTAAAATTTTTTATAGAATTG
Found at i:26933878 original size:19 final size:19
Alignment explanation
Indices: 26933799--26933882 Score: 71
Period size: 19 Copynumber: 4.2 Consensus size: 19
26933789 TTTTTTATTA
*
26933799 TTTTTAAAA-GTTTTGAATT
1 TTTTTAAAATTTTTTGAA-T
26933818 TTTTTAAAATTTTTATAGAAT
1 TTTTTAAAATTTTT-T-GAAT
***
26933839 TGTTTATATTTTTTATTTGAAT
1 T-TTT-TAAAATTT-TTTGAAT
26933861 TTTTTAAAATTTTTTGAAT
1 TTTTTAAAATTTTTTGAAT
26933880 TTT
1 TTT
26933883 CAAAAAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
19 19 0.37
20 8 0.15
21 6 0.12
22 11 0.21
23 6 0.12
24 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (19 bp):
TTTTTAAAATTTTTTGAAT
Found at i:26934750 original size:12 final size:12
Alignment explanation
Indices: 26934733--26934757 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26934723 ATTTCATGTC
26934733 TAATGATAAAAA
1 TAATGATAAAAA
26934745 TAATGATAAAAA
1 TAATGATAAAAA
26934757 T
1 T
26934758 TATTAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (12 bp):
TAATGATAAAAA
Found at i:26945313 original size:2 final size:2
Alignment explanation
Indices: 26945306--26945330 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26945296 CCTGAGGTGA
26945306 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
26945331 AAGAAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26951026 original size:25 final size:26
Alignment explanation
Indices: 26950989--26951042 Score: 92
Period size: 25 Copynumber: 2.1 Consensus size: 26
26950979 ATTATTACTA
26950989 ATAGAGAGTTAGTTTTGATAAATGCC
1 ATAGAGAGTTAGTTTTGATAAATGCC
*
26951015 ATAGAG-GTTAGTTTTGATAAATGGC
1 ATAGAGAGTTAGTTTTGATAAATGCC
26951040 ATA
1 ATA
26951043 AAGATAGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (26 bp):
ATAGAGAGTTAGTTTTGATAAATGCC
Found at i:26953046 original size:11 final size:11
Alignment explanation
Indices: 26953032--26953104 Score: 57
Period size: 11 Copynumber: 6.8 Consensus size: 11
26953022 GAATATTTTA
26953032 TAAATATAAAC
1 TAAATATAAAC
*
26953043 TAAATATATAC
1 TAAATATAAAC
*
26953054 -AAA-ATGAAC
1 TAAATATAAAC
*
26953063 TAAATATAAAA
1 TAAATATAAAC
26953074 TCAATATATAAAC
1 T-AA-ATATAAAC
26953087 -ATAAT-T-AAC
1 TA-AATATAAAC
26953096 TAAATATAA
1 TAAATATAA
26953105 CATTAATCTC
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
9 10 0.21
10 9 0.19
11 19 0.40
12 3 0.06
13 7 0.15
ACGTcount: A:0.62, C:0.08, G:0.01, T:0.29
Consensus pattern (11 bp):
TAAATATAAAC
Found at i:26953080 original size:31 final size:32
Alignment explanation
Indices: 26953032--26953104 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
26953022 GAATATTTTA
*
26953032 TAAATATAAACTAAATATAT-ACAAAATGAAC
1 TAAATATAAAATAAATATATAACAAAATGAAC
* * *
26953063 TAAATATAAAATCAATATATAAACATAATTAAC
1 TAAATATAAAATAAATATAT-AACAAAATGAAC
26953096 TAAATATAA
1 TAAATATAA
26953105 CATTAATCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 18 0.50
33 18 0.50
ACGTcount: A:0.62, C:0.08, G:0.01, T:0.29
Consensus pattern (32 bp):
TAAATATAAAATAAATATATAACAAAATGAAC
Found at i:26966174 original size:20 final size:20
Alignment explanation
Indices: 26966149--26966194 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
26966139 AATACTAGCT
*
26966149 GCAAACCTAATGGTTTAAAC
1 GCAAACATAATGGTTTAAAC
* *
26966169 GCAAACATAATTGTTTAAAG
1 GCAAACATAATGGTTTAAAC
26966189 GCAAAC
1 GCAAAC
26966195 TAGTTGGCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (20 bp):
GCAAACATAATGGTTTAAAC
Found at i:26967947 original size:3 final size:3
Alignment explanation
Indices: 26967939--26967979 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
26967929 ATTTGTCTTA
26967939 AAT 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 AAT AA
26967980 ATTAAATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26969542 original size:19 final size:19
Alignment explanation
Indices: 26969520--26969556 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
26969510 TATCTAGTAT
26969520 TATTCAAATTTATTTAAAA
1 TATTCAAATTTATTTAAAA
*
26969539 TATTCAAATTTGTTTAAA
1 TATTCAAATTTATTTAAA
26969557 TAGATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (19 bp):
TATTCAAATTTATTTAAAA
Found at i:26970553 original size:20 final size:19
Alignment explanation
Indices: 26970517--26970565 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
26970507 GAAATTAAAA
26970517 ATTAAATAAAAATTTTAAT
1 ATTAAATAAAAATTTTAAT
26970536 ATTAAATATATAAA-TTTAAT
1 ATTAAATA-A-AAATTTTAAT
*
26970556 A-AAAATAAAA
1 ATTAAATAAAA
26970566 GAGAAAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 2 0.07
18 1 0.04
19 13 0.48
20 8 0.30
21 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTAAATAAAAATTTTAAT
Found at i:26973611 original size:17 final size:17
Alignment explanation
Indices: 26973589--26973621 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26973579 ACTAAATAAA
26973589 TGATATATT-ATTTGAAG
1 TGATAT-TTGATTTGAAG
26973606 TGATATTTGATTTGAA
1 TGATATTTGATTTGAA
26973622 AAATATATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (17 bp):
TGATATTTGATTTGAAG
Found at i:26988675 original size:26 final size:25
Alignment explanation
Indices: 26988642--26988719 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 25
26988632 TTTAAAATTA
* *
26988642 AATTAAATTAAATTATGTTATTTGTT
1 AATTAAATTAAATTATATTAATT-TT
26988668 AATTAAATTAAA-TATATTAATTTT
1 AATTAAATTAAATTATATTAATTTT
*
26988692 AA--AAATTAAATT-TGATTGA-TTT
1 AATTAAATTAAATTAT-ATTAATTTT
26988714 AATTAA
1 AATTAA
26988720 TTTTTTAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 14 0.31
23 5 0.11
24 6 0.13
25 8 0.18
26 12 0.27
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (25 bp):
AATTAAATTAAATTATATTAATTTT
Found at i:26994935 original size:30 final size:30
Alignment explanation
Indices: 26994891--26994983 Score: 118
Period size: 30 Copynumber: 3.1 Consensus size: 30
26994881 TAAATTAAAT
*
26994891 TTTA-AGTTAGATAAATTTTTAAATTTTAA
1 TTTATAGTTAAATAAATTTTTAAATTTTAA
*
26994920 TTTATA-TCTAAATAAATTTTTAAAATTTAA
1 TTTATAGT-TAAATAAATTTTTAAATTTTAA
* *
26994950 ATTATAGTTAAATAAATTTTTAATATTTTTA
1 TTTATAGTTAAATAAATTTTTAA-ATTTTAA
26994981 TTT
1 TTT
26994984 GAAATAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.09
30 41 0.76
31 8 0.15
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TTTATAGTTAAATAAATTTTTAAATTTTAA
Found at i:26995035 original size:21 final size:23
Alignment explanation
Indices: 26994986--26995036 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
26994976 TTTTATTTGA
26994986 AATAAAATTTTATTTAGATATAT
1 AATAAAATTTTATTTAGATATAT
* *
26995009 ATTAAAATTTTA-TTGGA-ATAT
1 AATAAAATTTTATTTAGATATAT
26995030 AATAAAA
1 AATAAAA
26995037 AAATATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.40
22 4 0.16
23 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (23 bp):
AATAAAATTTTATTTAGATATAT
Found at i:26995074 original size:20 final size:21
Alignment explanation
Indices: 26995034--26995074 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
26995024 GAATATAATA
* *
26995034 AAAAAATATAATATTTTATTT
1 AAAAAATATAATAATTCATTT
26995055 AAAAAATA-AATAATTCATTT
1 AAAAAATATAATAATTCATTT
26995075 TTTGATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAAATATAATAATTCATTT
Found at i:26995673 original size:15 final size:12
Alignment explanation
Indices: 26995633--26995673 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
26995623 TGATCTTATC
26995633 TTATATTTAATTA
1 TTAT-TTTAATTA
26995646 TTATTTTAATTA
1 TTATTTTAATTA
26995658 TTATTTGTAATT-
1 TTATTT-TAATTA
26995670 TTAT
1 TTAT
26995674 AAAAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (12 bp):
TTATTTTAATTA
Found at i:26996824 original size:21 final size:21
Alignment explanation
Indices: 26996784--26996826 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26996774 TCATATAATC
* *
26996784 TTTTATTTAATGTTTTAATAT
1 TTTTATTTAATATTTGAATAT
*
26996805 TTTTATTTACTATTTGAATAT
1 TTTTATTTAATATTTGAATAT
26996826 T
1 T
26996827 AGAAAATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTTATTTAATATTTGAATAT
Done.