Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008569.1 Hibiscus syriacus cultivar Beakdansim tig00111493_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1513883
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 8
Found at i:1008534 original size:20 final size:19
Alignment explanation
Indices: 1008489--1008534 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
1008479 GAAATCACTC
*
1008489 AATAAATATATTTATTTAT
1 AATAAATATATTTATATAT
1008508 AATTAAATATATTTTATATAT
1 AA-TAAATATA-TTTATATAT
*
1008529 TATAAA
1 AATAAA
1008535 ATAGTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 12 0.52
21 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATAAATATATTTATATAT
Found at i:1008536 original size:21 final size:20
Alignment explanation
Indices: 1008492--1008537 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
1008482 ATCACTCAAT
* *
1008492 AAATATATTTATTTATAATT
1 AAATATATTTATATATAATA
*
1008512 AAATATATTTTATATATTATA
1 AAATATA-TTTATATATAATA
1008533 AAATA
1 AAATA
1008538 GTAAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATATATTTATATATAATA
Found at i:1008581 original size:37 final size:36
Alignment explanation
Indices: 1008525--1008596 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
1008515 TATATTTTAT
* * *
1008525 ATATTATAAAATAGTAAAAATTTAATAATAAATAATA
1 ATATTATAAAACAGTAAAAA-GTAAAAATAAATAATA
1008562 ATATTATAAAACA-TCAAAAAGTAAAAATAAATAAT
1 ATATTATAAAACAGT-AAAAAGTAAAAATAAATAAT
1008597 TTCTTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 14 0.45
37 17 0.55
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (36 bp):
ATATTATAAAACAGTAAAAAGTAAAAATAAATAATA
Found at i:1008736 original size:6 final size:6
Alignment explanation
Indices: 1008725--1008752 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1008715 AAATCTTAAA
1008725 TTTATT TTTATT TTTATT TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTA
1008753 CATTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:1008761 original size:18 final size:18
Alignment explanation
Indices: 1008725--1008767 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
1008715 AAATCTTAAA
** *
1008725 TTTATTTTTATTTTTATT
1 TTTATTTTTACATTAATT
1008743 TTTATTTTTACATTAATT
1 TTTATTTTTACATTAATT
*
1008761 TTAATTT
1 TTTATTT
1008768 AATATATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTTTACATTAATT
Found at i:1017227 original size:190 final size:188
Alignment explanation
Indices: 1016844--1017229 Score: 521
Period size: 190 Copynumber: 2.0 Consensus size: 188
1016834 TTTAAAATAT
* * **
1016844 TCAAAAGATAAAACTCATTTTATCATTTAAACTTAAATTATATTTTTTAATTTGAAATATACAAA
1 TCAAAAGGTAAAACTCATTTTATCATTCAAACTTAAAAAATATTTTTTAATTTGAAATATACAAA
* * *
1016909 AGTATATAATTATCTTTAATATTCAAAGTTAAAAATGTAACAAATACCTTTTTAAGTTGACATAT
66 AGCATATAATTATCTTTAATATTCAAAATTAAAAATGTAACAAATACCTTTTTAAATTGACATAT
* * **
1016974 TCAAAGAGTATTTATCCTACTAATATTCAAATTAAATAACATATTGAATTTGCAATTG
131 TAAAAGAGTAATTATCCTACTAATATTCAAATTAAATAACATATTGAATTTGCAAAAG
*
1017032 TCAAAAGGT-AAACTCCTTTTA-CTATTCAAACTTAAACAAATATTATTTTAATTTGAAATATAC
1 TCAAAAGGTAAAACTCATTTTATC-ATTCAAACTTAAA-AAATATT-TTTTAATTTGAAATATAC
*
1017095 AAAAGCATATAATTATATTTTAATATTCAAAATTAAAAA-GATAACAAATACCTTTTTAAATTGA
63 AAAAGCATATAATTAT-CTTTAATATTCAAAATTAAAAATG-TAACAAATACCTTTTTAAATTGA
* * * *
1017159 CTTATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAAATTATC-T-TTTAATTTGTAAAAG
126 CATATTAAAAGAGTAATTATCCTACTAATATTCAAATT-AAA-TAACATATTGAATTTGCAAAAG
1017222 TCAAAAGG
1 TCAAAAGG
1017230 ACTATGAATT
Statistics
Matches: 174, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
186 1 0.01
187 23 0.13
188 13 0.07
189 34 0.20
190 96 0.55
191 4 0.02
192 3 0.02
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (188 bp):
TCAAAAGGTAAAACTCATTTTATCATTCAAACTTAAAAAATATTTTTTAATTTGAAATATACAAA
AGCATATAATTATCTTTAATATTCAAAATTAAAAATGTAACAAATACCTTTTTAAATTGACATAT
TAAAAGAGTAATTATCCTACTAATATTCAAATTAAATAACATATTGAATTTGCAAAAG
Found at i:1020033 original size:21 final size:22
Alignment explanation
Indices: 1019998--1020044 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
1019988 AATAAAATGT
1019998 TTAACAAAAAAGATACCAATTG
1 TTAACAAAAAAGATACCAATTG
* *
1020020 TTAAC-AAAATGATATCAATTG
1 TTAACAAAAAAGATACCAATTG
1020041 TTAA
1 TTAA
1020045 AAAGATATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.30
Consensus pattern (22 bp):
TTAACAAAAAAGATACCAATTG
Found at i:1020051 original size:18 final size:19
Alignment explanation
Indices: 1020003--1020057 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
1019993 AATGTTTAAC
*
1020003 AAAAAAGATACCAATTGTT
1 AAAAAAGATATCAATTGTT
1020022 AACAAAATGATATCAATTGTT
1 AA-AAAA-GATATCAATTGTT
1020043 -AAAAAGATATCAATT
1 AAAAAAGATATCAATT
1020058 TTTACCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 10 0.30
19 6 0.18
20 5 0.15
21 12 0.36
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (19 bp):
AAAAAAGATATCAATTGTT
Found at i:1021057 original size:19 final size:20
Alignment explanation
Indices: 1021026--1021063 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1021016 CAAAATTTCA
1021026 TTTTGATTTTCAAAATCAAC
1 TTTTGATTTTCAAAATCAAC
1021046 TTTTGA-TTTCAAAATCAA
1 TTTTGATTTTCAAAATCAA
1021064 ATGATCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTTGATTTTCAAAATCAAC
Found at i:1022622 original size:34 final size:33
Alignment explanation
Indices: 1022575--1022640 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
1022565 TTACAACTCC
*
1022575 CTAGTTTTTCACGGGATAAACTATAACCTTTCT
1 CTAGTTTTACACGGGATAAACTATAACCTTTCT
* *
1022608 CTAGCTTTTACACGGGCTAAGCTATAACCTTTC
1 CTAG-TTTTACACGGGATAAACTATAACCTTTC
1022641 CCCTTTACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (33 bp):
CTAGTTTTACACGGGATAAACTATAACCTTTCT
Found at i:1023029 original size:20 final size:20
Alignment explanation
Indices: 1023004--1023041 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1022994 CGTTGCAACT
*
1023004 AGGGTGAATTGATGCACTGC
1 AGGGTGAATCGATGCACTGC
*
1023024 AGGGTGCATCGATGCACT
1 AGGGTGAATCGATGCACT
1023042 AATTGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.24
Consensus pattern (20 bp):
AGGGTGAATCGATGCACTGC
Found at i:1023150 original size:20 final size:20
Alignment explanation
Indices: 1023097--1023150 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
1023087 CAATGCACAA
*
1023097 TGCATGGATACACTGCAAAG
1 TGCATGGATACACTACAAAG
**
1023117 TGCATGGA-AGCACTACAGGG
1 TGCATGGATA-CACTACAAAG
*
1023137 TGTATGGATACACT
1 TGCATGGATACACT
1023151 TTGACACCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (20 bp):
TGCATGGATACACTACAAAG
Found at i:1025050 original size:20 final size:20
Alignment explanation
Indices: 1025006--1025046 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
1024996 TTCAAAGAGT
1025006 AATTATCCTATTAATATTCA
1 AATTATCCTATTAATATTCA
*
1025026 AATTAT-CTTTTAATATTCA
1 AATTATCCTATTAATATTCA
1025045 AA
1 AA
1025047 ATTAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTATCCTATTAATATTCA
Found at i:1025052 original size:88 final size:87
Alignment explanation
Indices: 1024939--1025118 Score: 272
Period size: 88 Copynumber: 2.1 Consensus size: 87
1024929 AAAAATATAT
* *
1024939 AATTATTTTTAATATTAAAAGTTAAAAAGGCAACAAATACCTTTTTAAGTTGACATATTCAAAGA
1 AATTATTTTTAATATTAAAAGTTAAAAAGACAACAAATACCTTTTTAAGTTGACATATTAAAAGA
*
1025004 GTAATTATCCTATTAATATTCA
66 GTAATTATCCTACTAATATTCA
* * *
1025026 AATTATCTTTTAATATTCAAAA-TTAAAAAGATAACAAATACCTTTTTAATTTGACTTATTAAAA
1 AATTAT-TTTTAATATT-AAAAGTTAAAAAGACAACAAATACCTTTTTAAGTTGACATATTAAAA
*
1025090 GAGTAATTATCCTACTAATATTTA
64 GAGTAATTATCCTACTAATATTCA
1025114 AATTA
1 AATTA
1025119 AAAATTATAT
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
87 6 0.07
88 74 0.88
89 4 0.05
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.39
Consensus pattern (87 bp):
AATTATTTTTAATATTAAAAGTTAAAAAGACAACAAATACCTTTTTAAGTTGACATATTAAAAGA
GTAATTATCCTACTAATATTCA
Found at i:1025572 original size:27 final size:26
Alignment explanation
Indices: 1025521--1025581 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
1025511 CGTTTGGTTA
**
1025521 TAGAAAATATTTTCTGTTTTTATTTC
1 TAGAAAATATTTTCTGTTTCAATTTC
*
1025547 TAGAAAATAGTTTTCAT-TTTCAATTTT
1 TAGAAAATA-TTTTC-TGTTTCAATTTC
*
1025574 TTGAAAAT
1 TAGAAAAT
1025582 TAGAAAACAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 9 0.31
27 19 0.66
28 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.52
Consensus pattern (26 bp):
TAGAAAATATTTTCTGTTTCAATTTC
Found at i:1028640 original size:21 final size:21
Alignment explanation
Indices: 1028614--1028689 Score: 143
Period size: 21 Copynumber: 3.6 Consensus size: 21
1028604 TTACCCATTA
1028614 ATATTTCTAAGTAAATATAGT
1 ATATTTCTAAGTAAATATAGT
1028635 ATATTTCTAAGTAAATATAGT
1 ATATTTCTAAGTAAATATAGT
1028656 ATATTTCTAAGTAAATATAGT
1 ATATTTCTAAGTAAATATAGT
1028677 ATATTTCATAAGT
1 ATATTTC-TAAGT
1028690 TTGGTTTGTG
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 49 0.91
22 5 0.09
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (21 bp):
ATATTTCTAAGTAAATATAGT
Found at i:1037112 original size:32 final size:32
Alignment explanation
Indices: 1037046--1037125 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
1037036 ATATTTAAAA
* *
1037046 TATATTTATTAATATTTCTAATAACAGAATAT
1 TATATTTATTAATATTTATAATAAAAGAATAT
*
1037078 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAAGAAT--AT
*
1037110 TATATTATAATAATAT
1 TATATT-TATTAATAT
1037126 AAGATATTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 12 0.31
31 6 0.15
32 15 0.38
33 1 0.03
34 5 0.13
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAAGAATAT
Found at i:1037304 original size:23 final size:23
Alignment explanation
Indices: 1037278--1037322 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1037268 AATAATATTT
1037278 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
1037301 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
1037323 ATATAAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:1037430 original size:20 final size:21
Alignment explanation
Indices: 1037393--1037433 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1037383 AATATATCAT
*
1037393 ATTAATATTTTTATTAATAAA
1 ATTAATATTTTTAATAATAAA
1037414 ATTAATA-TTTTAATAATAAA
1 ATTAATATTTTTAATAATAAA
1037434 TAAATTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAATATTTTTAATAATAAA
Found at i:1037431 original size:32 final size:32
Alignment explanation
Indices: 1037339--1037431 Score: 84
Period size: 32 Copynumber: 2.8 Consensus size: 32
1037329 AACTATTACT
1037339 TTAATAAATAATTAATATAATTT-ATAATATTTTTA
1 TTAAT-AA-AATTAATAT--TTTAATAATATTTTTA
** *
1037374 TTACAATAAAA-T-ATATCATATTAATATTTTTA
1 TT--AATAAAATTAATATTTTAATAATATTTTTA
1037406 TTAATAAAATTAATATTTTAATAATA
1 TTAATAAAATTAATATTTTAATAATA
1037432 AATAAATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
30 7 0.15
31 2 0.04
32 24 0.51
33 4 0.09
34 1 0.02
35 4 0.09
36 2 0.04
37 3 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (32 bp):
TTAATAAAATTAATATTTTAATAATATTTTTA
Found at i:1037448 original size:28 final size:28
Alignment explanation
Indices: 1037415--1037468 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
1037405 ATTAATAAAA
*
1037415 TTAATATTTTAATAATAAATAA-ATTATC
1 TTAATATTTTAAAAAT-AATAATATTATC
1037443 TTAATATTTTAAAAATAATAATATTA
1 TTAATATTTTAAAAATAATAATATTA
1037469 AGTTTTATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
TTAATATTTTAAAAATAATAATATTATC
Found at i:1042208 original size:37 final size:37
Alignment explanation
Indices: 1042156--1042265 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 37
1042146 AAGCAAACGT
*
1042156 TAGAGTTTTAGTAGGATTCAAACTTCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAGGA
*
1042193 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAGGA
* *
1042230 TAGAGTTTTACTATGATTCAAACTTCTAACAATAGG
1 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAGG
1042266 CTCCACAAGC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAGGA
Found at i:1042826 original size:24 final size:23
Alignment explanation
Indices: 1042763--1042842 Score: 79
Period size: 25 Copynumber: 3.3 Consensus size: 23
1042753 CATGTAATAT
* * *
1042763 TTTTTTACATTTTATGTATTTTC
1 TTTTTTACATTATATATATTTTA
*
1042786 TTTTTTACTTTAGTATATACTTTTA
1 TTTTTTACATTA-TATATA-TTTTA
*
1042811 TTTTTTAGATTATATATATATGTTA
1 TTTTTTACATTATATATAT-T-TTA
1042836 TTTTTTA
1 TTTTTTA
1042843 TAATCTGTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
23 11 0.23
24 12 0.26
25 24 0.51
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (23 bp):
TTTTTTACATTATATATATTTTA
Found at i:1042892 original size:38 final size:36
Alignment explanation
Indices: 1042811--1042932 Score: 97
Period size: 38 Copynumber: 3.2 Consensus size: 36
1042801 TATACTTTTA
1042811 TTTT-TTAGATTATATATATATGTTAT-TTTTTATAATCT
1 TTTTATTA-ATTATATATATAT-TTATATTTTT-T-ATCT
*
1042849 GTTTTATTAATTTATATATATATTTACTATTTTTTATGT
1 -TTTTATTAA-TTATATATATATTTA-TATTTTTTATCT
* * *
1042888 TTTTATTTATTAT-TATTATATATATATTATTTTTATTT
1 TTTTATTAATTATATA-TATATTTATA-T-TTTTTATCT
1042926 TTTTATT
1 TTTTATT
1042933 TTTTATTATT
Statistics
Matches: 72, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
36 4 0.06
37 12 0.17
38 23 0.32
39 11 0.15
40 17 0.24
41 5 0.07
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (36 bp):
TTTTATTAATTATATATATATTTATATTTTTTATCT
Found at i:1042925 original size:45 final size:45
Alignment explanation
Indices: 1042852--1042939 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
1042842 ATAATCTGTT
1042852 TTATTAATTTATATATATATTTACTA-TTTTTTATGTTTTTATTTA
1 TTATTAATTTATATATATATTTACTATTTTTTTAT-TTTTTATTTA
*
1042897 TTATT-ATTATATATATATTATTT-TTATTTTTTTATTTTTTATT
1 TTATTAATT-TATATATA-TATTTACTATTTTTTTATTTTTTATT
1042940 ATTTGTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
44 3 0.08
45 23 0.59
46 13 0.33
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (45 bp):
TTATTAATTTATATATATATTTACTATTTTTTTATTTTTTATTTA
Found at i:1042930 original size:8 final size:8
Alignment explanation
Indices: 1042878--1042998 Score: 91
Period size: 8 Copynumber: 13.9 Consensus size: 8
1042868 ATATTTACTA
1042878 TTTTTTAT
1 TTTTTTAT
*
1042886 GTTTTTAT
1 TTTTTTAT
1042894 TTATTATTAT
1 TT-TT-TTAT
*
1042904 TATATATATAT
1 T-T-T-TTTAT
1042915 TATTTTTAT
1 T-TTTTTAT
1042924 TTTTTTATT
1 TTTTTTA-T
1042933 TTTTATTAT
1 TTTT-TTAT
*
1042942 TTGTTTAT
1 TTTTTTAT
1042950 TTGTTTTAT
1 TT-TTTTAT
* *
1042959 TTATATAT
1 TTTTTTAT
1042967 TTTTTCT-T
1 TTTTT-TAT
1042975 TTTTTTAT
1 TTTTTTAT
1042983 TTTTTTAT
1 TTTTTTAT
1042991 ATTTTTTA
1 -TTTTTTA
1042999 CCTATATTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
7 1 0.01
8 42 0.45
9 31 0.33
10 9 0.10
11 9 0.10
12 1 0.01
ACGTcount: A:0.20, C:0.01, G:0.02, T:0.77
Consensus pattern (8 bp):
TTTTTTAT
Found at i:1042933 original size:38 final size:39
Alignment explanation
Indices: 1042851--1042942 Score: 114
Period size: 38 Copynumber: 2.3 Consensus size: 39
1042841 TATAATCTGT
*
1042851 TTTATTAATTTATATATATATTTACTATTTTTTATGTTTTTA
1 TTTATT-A-TTAT-TATATATATACTATTTTTTATGTTTTTA
* *
1042893 TTTATTATTATTATATATATATTA-TTTTTATTTTTTTA
1 TTTATTATTATTATATATATACTATTTTTTATGTTTTTA
*
1042931 TTTTTTATTATT
1 TTTATTATTATT
1042943 TGTTTATTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 24 0.52
39 11 0.24
40 4 0.09
41 1 0.02
42 6 0.13
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (39 bp):
TTTATTATTATTATATATATACTATTTTTTATGTTTTTA
Found at i:1042949 original size:52 final size:52
Alignment explanation
Indices: 1042876--1042987 Score: 140
Period size: 52 Copynumber: 2.2 Consensus size: 52
1042866 ATATATTTAC
*
1042876 TATTTTTTATGTTTTTATTTATTAT-TATTATATATATATTATTTT-TATTTTTT
1 TATTTTTTATGTATTTATTTATT-TGTATTATATATATATT-TTTTCT-TTTTTT
* * *
1042929 TATTTTTTAT-TATTTGTTTATTTGTTTTATTTATATATTTTTTCTTTTTTT
1 TATTTTTTATGTATTTATTTATTTGTATTATATATATATTTTTTCTTTTTTT
1042980 TATTTTTT
1 TATTTTTT
1042988 TATATTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
51 19 0.36
52 24 0.45
53 10 0.19
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.77
Consensus pattern (52 bp):
TATTTTTTATGTATTTATTTATTTGTATTATATATATATTTTTTCTTTTTTT
Found at i:1042950 original size:11 final size:10
Alignment explanation
Indices: 1042833--1043018 Score: 73
Period size: 10 Copynumber: 17.7 Consensus size: 10
1042823 TATATATATG
1042833 TTATTTTTTA
1 TTATTTTTTA
*
1042843 TAATCTGTTTTA
1 TTAT-T-TTTTA
* *
1042855 TTAATTTATA
1 TTATTTTTTA
*
1042865 -TATATATTTA
1 TTAT-TTTTTA
*
1042875 CTATTTTTTA
1 TTATTTTTTA
*
1042885 TGTTTTTATTTA
1 T-TATTT-TTTA
1042897 TTATTATTATATA
1 TTATT-TT-T-TA
*
1042910 TATATTATTT-
1 T-TATTTTTTA
1042920 TTA-TTTTT-
1 TTATTTTTTA
1042928 TTATTTTTTA
1 TTATTTTTTA
1042938 TTATTTGTTTA
1 TTATTT-TTTA
*
1042949 TT-TGTTTTA
1 TTATTTTTTA
1042958 TTTATATATTTT-
1 -TTAT-T-TTTTA
*
1042970 TTCTTTTTT-
1 TTATTTTTTA
1042979 TTATTTTTT-
1 TTATTTTTTA
1042988 TATATTTTTTA
1 T-TATTTTTTA
*
1042999 CCTATATTTTTA
1 -TTAT-TTTTTA
1043011 TTTATTTT
1 -TTATTTT
1043019 ACTTACTATT
Statistics
Matches: 135, Mismatches: 20, Indels: 41
0.69 0.10 0.21
Matches are distributed among these distances:
8 7 0.05
9 26 0.19
10 36 0.27
11 30 0.22
12 24 0.18
13 8 0.06
14 4 0.03
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.73
Consensus pattern (10 bp):
TTATTTTTTA
Found at i:1042959 original size:41 final size:41
Alignment explanation
Indices: 1042914--1043018 Score: 115
Period size: 41 Copynumber: 2.5 Consensus size: 41
1042904 TATATATATA
*
1042914 TTATTTTTAT-TTTTTTATTTTTTATTATTTGTTTAT-TTGTT
1 TTATTTATATATTTTTTATTTTTT-TTATTTGTTTATATT-TT
* *
1042955 TTATTTATATATTTTTTCTTTTTTTTATTTTTTTATATTTT
1 TTATTTATATATTTTTTATTTTTTTTATTTGTTTATATTTT
** *
1042996 TTACCTATATTTTTATTTATTTT
1 TTATTTATATATTT-TTTATTTT
1043019 ACTTACTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
41 33 0.61
42 21 0.39
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (41 bp):
TTATTTATATATTTTTTATTTTTTTTATTTGTTTATATTTT
Found at i:1042978 original size:9 final size:9
Alignment explanation
Indices: 1042912--1042997 Score: 68
Period size: 9 Copynumber: 8.9 Consensus size: 9
1042902 ATTATATATA
*
1042912 TATTATTTT
1 TATTTTTTT
1042921 TA-TTTTTT
1 TATTTTTTT
1042929 TATTTTTTAT
1 TATTTTTT-T
1042939 TATTTGTTTAT
1 TATTT-TTT-T
1042950 T-TGTTTTATT
1 TAT-TTTT-TT
1042960 TATATATTTTT
1 TAT-T-TTTTT
*
1042971 TCTTTTTTT
1 TATTTTTTT
1042980 TATTTTTTT
1 TATTTTTTT
1042989 ATATTTTTT
1 -TATTTTTT
1042998 ACCTATATTT
Statistics
Matches: 65, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
8 7 0.11
9 20 0.31
10 20 0.31
11 15 0.23
12 3 0.05
ACGTcount: A:0.16, C:0.01, G:0.02, T:0.80
Consensus pattern (9 bp):
TATTTTTTT
Found at i:1043008 original size:21 final size:22
Alignment explanation
Indices: 1042984--1043030 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
1042974 TTTTTTTATT
1042984 TTTTTATATT-TTTTACCTA-TA
1 TTTTTAT-TTATTTTACCTACTA
*
1043005 TTTTTATTTATTTTACTTACTA
1 TTTTTATTTATTTTACCTACTA
1043027 TTTT
1 TTTT
1043031 ATCTTTGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 15 0.65
22 6 0.26
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTATTTATTTTACCTACTA
Found at i:1043051 original size:62 final size:62
Alignment explanation
Indices: 1042919--1043057 Score: 140
Period size: 61 Copynumber: 2.2 Consensus size: 62
1042909 ATATATTATT
* * * * * **
1042919 TTTATTTTTTTATTTTTTATTATTTGTTTATTTGTTTTATTTATATATTTTTTCTTTTTTTTA
1 TTTA-TTTTATATTTTTTACTATTTGTTTATTTATTTTACTTATATATTTTATCTTTGCTTTA
* *
1042982 TTT-TTTTATATTTTTTACCTATATT-TTTATTTATTTTACTTA-CTATTTTATCTTTGCTTTC
1 TTTATTTTATATTTTTTA-CTAT-TTGTTTATTTATTTTACTTATATATTTTATCTTTGCTTTA
*
1043043 TTTATTTTATCTTTT
1 TTTATTTTATATTTT
1043058 ATTTAATTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
61 30 0.48
62 28 0.44
63 5 0.08
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (62 bp):
TTTATTTTATATTTTTTACTATTTGTTTATTTATTTTACTTATATATTTTATCTTTGCTTTA
Found at i:1046145 original size:15 final size:15
Alignment explanation
Indices: 1046121--1046185 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
1046111 CGATCAGAAC
*
1046121 AAAAAGAAAAAAGAG
1 AAAAAAAAAAAAGAG
1046136 AAAAAAAAAACAA-AG
1 AAAAAAAAAA-AAGAG
**
1046151 --AAAAAGCAAAGAG
1 AAAAAAAAAAAAGAG
*
1046164 AAAATAAAAAAAGAG
1 AAAAAAAAAAAAGAG
1046179 AATAAAA
1 AA-AAAA
1046186 GCCAAGGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
12 2 0.05
13 8 0.21
15 23 0.61
16 5 0.13
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAAAGAG
Found at i:1047309 original size:32 final size:33
Alignment explanation
Indices: 1047265--1047327 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
1047255 TGTGAGAACC
*
1047265 TTGGAAGATTCAACATCAAATGTTGGGGCATTT
1 TTGGAAGATTCAACATCAAATATTGGGGCATTT
*
1047298 TTGGAA-ATTCAACATCGAATATTGGGGCAT
1 TTGGAAGATTCAACATCAAATATTGGGGCAT
1047328 CTTCGGGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 22 0.79
33 6 0.21
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (33 bp):
TTGGAAGATTCAACATCAAATATTGGGGCATTT
Found at i:1047340 original size:32 final size:32
Alignment explanation
Indices: 1047270--1047341 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
1047260 GAACCTTGGA
* * *
1047270 AGATTCAACATCAAATGTTGGGGCATTTTTGG
1 AGATTCAACATCAAATATTGGGGCATCTTCGG
* *
1047302 AAATTCAACATCGAATATTGGGGCATCTTCGG
1 AGATTCAACATCAAATATTGGGGCATCTTCGG
*
1047334 GGATTCAA
1 AGATTCAA
1047342 AATCCTGATG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (32 bp):
AGATTCAACATCAAATATTGGGGCATCTTCGG
Found at i:1048004 original size:110 final size:110
Alignment explanation
Indices: 1047864--1048376 Score: 812
Period size: 110 Copynumber: 4.7 Consensus size: 110
1047854 CGAGACAAGT
1047864 TGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCATAGCGAAGGATAT
1 TGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCATAGCGAAGGATAT
* *
1047929 TGAACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGGTGAC
66 TGAACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGAC
* *
1047974 TGACTATCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTTAACTTCATAGCGAAGGATAT
1 TGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCATAGCGAAGGATAT
*
1048039 TGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGAC
66 TGAACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGAC
* * * * *
1048084 TGACTGTCAATAAACAACTTTTCAGTTTTATTCAGAGTTAATTTCAACTTCACAGCGAAGAATAT
1 TGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCATAGCGAAGGATAT
* *
1048149 TGGACTCGAGACAACACAAGCTCAACTTCATAGCGAAGGGGCGAC
66 TGAACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGAC
* * * * *
1048194 TGACTGTCAACAAACAATTTTTAAGTTTCATTCAGAATCAATTTTAACTTCACA-CGAAGGATAT
1 TGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCATAGCGAAGGATAT
* * * *
1048258 TGAACTCGAGATAACACAAGCTCAACTTCACAGCTAAAGGGCGAT
66 TGAACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGAC
* *
1048303 TGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCATATCGAAGGATAT
1 TGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCATAGCGAAGGATAT
1048368 TGAACTCGA
66 TGAACTCGA
1048377 AGTGACATAA
Statistics
Matches: 369, Mismatches: 33, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
109 96 0.26
110 273 0.74
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (110 bp):
TGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCATAGCGAAGGATAT
TGAACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGAC
Found at i:1050060 original size:711 final size:711
Alignment explanation
Indices: 1048698--1050119 Score: 2817
Period size: 711 Copynumber: 2.0 Consensus size: 711
1048688 GGGCTTCCTA
1048698 GTTTCAGATCCAATTTCAACTTCACGGTGGAGGATATTGGACTCGAAACAATACAACTTACTTGT
1 GTTTCAGATCCAATTTCAACTTCACGGTGGAGGATATTGGACTCGAAACAATACAACTTACTTGT
1048763 ATTTCAACTTCACAACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCACCCAC
66 ATTTCAACTTCACAACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCACCCAC
1048828 AGTTTCAACTTCACGACGAAGGGAATCTTGCACACAAGAAGCATCATTCTCTAGATTAGATTTCA
131 AGTTTCAACTTCACGACGAAGGGAATCTTGCACACAAGAAGCATCATTCTCTAGATTAGATTTCA
1048893 ACTTCACGACGAAGGATATTCAACTCAAAGAAGGAGTGTCTGTCAACAAACTTTCCAGTTTCAGA
196 ACTTCACGACGAAGGATATTCAACTCAAAGAAGGAGTGTCTGTCAACAAACTTTCCAGTTTCAGA
1048958 GTCAATTTCAACTTCACAGCGAAGGATATTGGCCTCGGAATAGTGCAACTTACATTGGATTTCAA
261 GTCAATTTCAACTTCACAGCGAAGGATATTGGCCTCGGAATAGTGCAACTTACATTGGATTTCAA
1049023 CTTCACGATGAAGGACATCCAATACCCAGGCTAAACTTCATGACGAATGGATCCTATACGATTCC
326 CTTCACGATGAAGGACATCCAATACCCAGGCTAAACTTCATGACGAATGGATCCTATACGATTCC
1049088 AACTCCACAAACAGATTGACCCAACTTCACGACGAAGGAGTCATCTGTAATACAATAACACCAAA
391 AACTCCACAAACAGATTGACCCAACTTCACGACGAAGGAGTCATCTGTAATACAATAACACCAAA
1049153 GTCTTCAGGTTAAGTTTCACCTTCACGACGAAGTATCTTGAGCCAGAAGACGATTTAGAGGCCAC
456 GTCTTCAGGTTAAGTTTCACCTTCACGACGAAGTATCTTGAGCCAGAAGACGATTTAGAGGCCAC
1049218 TCGCCAAGAGCTTTGAGTTCGATTTTAACTTCATGATGAATGATATCGTGCTCAGAAGCTTCCAG
521 TCGCCAAGAGCTTTGAGTTCGATTTTAACTTCATGATGAATGATATCGTGCTCAGAAGCTTCCAG
1049283 TTCAACTTGAACTCACTACGGAAGAGTCATCCGCAACTCAATTCGACAGGGAGTTATTGAAACAT
586 TTCAACTTGAACTCACTACGGAAGAGTCATCCGCAACTCAATTCGACAGGGAGTTATTGAAACAT
1049348 CAGAGTCAATTTTCAAACCCACCGAACGAAAAATGTGTCTTTTAATCTTTTCCCTATCCCC
651 CAGAGTCAATTTTCAAACCCACCGAACGAAAAATGTGTCTTTTAATCTTTTCCCTATCCCC
1049409 GTTTCAGATCCAATTTCAACTTCACGGTGGAGGATATTGGACTCGAAACAATACAACTTACTTGT
1 GTTTCAGATCCAATTTCAACTTCACGGTGGAGGATATTGGACTCGAAACAATACAACTTACTTGT
1049474 ATTTCAACTTCACAACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCACCCAC
66 ATTTCAACTTCACAACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCACCCAC
* *
1049539 AGTTTCAACTTCACGACGAAGGGAATCTTGTACACAAGAAGCATCATTCTCTAGATTATATTTCA
131 AGTTTCAACTTCACGACGAAGGGAATCTTGCACACAAGAAGCATCATTCTCTAGATTAGATTTCA
1049604 ACTTCACGACGAAGGATATTCAACTCAAAGAAGGAGTGTCTGTCAACAAACTTTCCAGTTTCAGA
196 ACTTCACGACGAAGGATATTCAACTCAAAGAAGGAGTGTCTGTCAACAAACTTTCCAGTTTCAGA
1049669 GTCAATTTCAACTTCACAGCGAAGGATATTGGCCTCGGAATAGTGCAACTTACATTGGATTTCAA
261 GTCAATTTCAACTTCACAGCGAAGGATATTGGCCTCGGAATAGTGCAACTTACATTGGATTTCAA
1049734 CTTCACGATGAAGGACATCCAATACCCAGGCTAAACTTCATGACGAATGGATCCTATACGATTCC
326 CTTCACGATGAAGGACATCCAATACCCAGGCTAAACTTCATGACGAATGGATCCTATACGATTCC
1049799 AACTCCACAAACAGATTGACCCAACTTCACGACGAAGGAGTCATCTGTAATACAATAACACCAAA
391 AACTCCACAAACAGATTGACCCAACTTCACGACGAAGGAGTCATCTGTAATACAATAACACCAAA
*
1049864 GTCTTCAGGTTAAGTTTCACCTTCACGACGAAGTGTCTTGAGCCAGAAGACGATTTAGAGGCCAC
456 GTCTTCAGGTTAAGTTTCACCTTCACGACGAAGTATCTTGAGCCAGAAGACGATTTAGAGGCCAC
1049929 TCGCCAAGAGCTTTGAGTTCGATTTTAACTTCATGATGAATGATATCGTGCTCAGAAGCTTCCAG
521 TCGCCAAGAGCTTTGAGTTCGATTTTAACTTCATGATGAATGATATCGTGCTCAGAAGCTTCCAG
1049994 TTCAACTTGAACTCACTACGGAAGAGTCATCCGCAACTCAATTCGACAGGGAGTTATTGAAACAT
586 TTCAACTTGAACTCACTACGGAAGAGTCATCCGCAACTCAATTCGACAGGGAGTTATTGAAACAT
1050059 CAGAGTCAATTTTCAAACCCACCGAACGAAAAATGTGTCTTTTAATCTTTTCCCTATCCCC
651 CAGAGTCAATTTTCAAACCCACCGAACGAAAAATGTGTCTTTTAATCTTTTCCCTATCCCC
1050120 ATTACATGAC
Statistics
Matches: 708, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
711 708 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (711 bp):
GTTTCAGATCCAATTTCAACTTCACGGTGGAGGATATTGGACTCGAAACAATACAACTTACTTGT
ATTTCAACTTCACAACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCACCCAC
AGTTTCAACTTCACGACGAAGGGAATCTTGCACACAAGAAGCATCATTCTCTAGATTAGATTTCA
ACTTCACGACGAAGGATATTCAACTCAAAGAAGGAGTGTCTGTCAACAAACTTTCCAGTTTCAGA
GTCAATTTCAACTTCACAGCGAAGGATATTGGCCTCGGAATAGTGCAACTTACATTGGATTTCAA
CTTCACGATGAAGGACATCCAATACCCAGGCTAAACTTCATGACGAATGGATCCTATACGATTCC
AACTCCACAAACAGATTGACCCAACTTCACGACGAAGGAGTCATCTGTAATACAATAACACCAAA
GTCTTCAGGTTAAGTTTCACCTTCACGACGAAGTATCTTGAGCCAGAAGACGATTTAGAGGCCAC
TCGCCAAGAGCTTTGAGTTCGATTTTAACTTCATGATGAATGATATCGTGCTCAGAAGCTTCCAG
TTCAACTTGAACTCACTACGGAAGAGTCATCCGCAACTCAATTCGACAGGGAGTTATTGAAACAT
CAGAGTCAATTTTCAAACCCACCGAACGAAAAATGTGTCTTTTAATCTTTTCCCTATCCCC
Found at i:1050264 original size:37 final size:37
Alignment explanation
Indices: 1050223--1050330 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
1050213 AAACAAACGT
* *
1050223 TAGAGTTTTAGTAGGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATAA
1050260 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATAA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATAA
*
1050297 TAGAGTTTTACTATGATTCAAACTCCTAAAAATA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATA
1050331 GGCTCCACAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATAA
Found at i:1050941 original size:46 final size:44
Alignment explanation
Indices: 1050891--1051018 Score: 120
Period size: 46 Copynumber: 2.9 Consensus size: 44
1050881 TACATAAATA
*
1050891 ATATATATATGTTATTTTTTATTATCTTTTTTATTAATTTATATAT
1 ATATATATATATTATTTTTTATTAT-TTTTTTATT-ATTTATATAT
* * *
1050937 ATATATATTTACTATTTTTTATGT-TTTTATTTATTATATATATAT
1 ATATATATATATTATTTTTTAT-TATTTT-TTTATTATTTATATAT
* *
1050982 ATAT-TA-ATTTTACTTTTTT-TTATTATTTTATTTATTT
1 ATATATATATATTA-TTTTTTATTATTTTTTTA-TTATTT
1051019 GTTTTATTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
42 5 0.07
43 12 0.18
44 8 0.12
45 16 0.24
46 26 0.38
47 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (44 bp):
ATATATATATATTATTTTTTATTATTTTTTTATTATTTATATAT
Found at i:1050971 original size:4 final size:4
Alignment explanation
Indices: 1050902--1051090 Score: 51
Period size: 4 Copynumber: 48.5 Consensus size: 4
1050892 TATATATATG
* * * * *
1050902 TTAT TT-T TTA- TTAT CTTTT TTAT TAAT TTAT ATAT ATAT ATAT TTA-
1 TTAT TTAT TTAT TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * * * * *
1050948 CTAT TT-T TTAT GTT-T TTAT TTA- TTAT ATAT ATAT ATAT TAATT TTAC
1 TTAT TTAT TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT
* * *
1050995 TT-T TT-T TTA- TTATT TTAT TTAT TTGTT TTAT TTAT ATAT TT-T TTCT
1 TTAT TTAT TTAT TTA-T TTAT TTAT TT-AT TTAT TTAT TTAT TTAT TTAT
* * * * * *
1051041 TCTTT TTCT TTAT TTTT TTA- ATAT TT-T TTAC ATATT TTAT TTAT TTAT
1 T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT
1051089 TT
1 TT
1051091 TGCTTACTAT
Statistics
Matches: 138, Mismatches: 29, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
3 32 0.23
4 87 0.63
5 19 0.14
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:1051008 original size:41 final size:38
Alignment explanation
Indices: 1050917--1051009 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 38
1050907 TTTTATTATC
1050917 TTTTTTATTAATTTATATATATATATATTTACTATTTTTT
1 TTTTTTATT-ATTTATATATATATATATTTAC-ATTTTTT
1050957 ATGTTTTTATT-TATTATATATATATATA-TTA-ATTTTACTT
1 -T-TTTTTATTAT-TTATATATATATATATTTACATTTT--TT
1050997 TTTTTTATTATTT
1 TTTTTTATTATTT
1051010 TATTTATTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
38 15 0.32
39 2 0.04
40 6 0.13
41 16 0.34
42 8 0.17
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (38 bp):
TTTTTTATTATTTATATATATATATATTTACATTTTTT
Found at i:1051031 original size:46 final size:43
Alignment explanation
Indices: 1050905--1051075 Score: 130
Period size: 46 Copynumber: 3.7 Consensus size: 43
1050895 ATATATGTTA
** *
1050905 TTTTTTATTATCTTTTTTATTAATTTATATATATATATATTTACTA
1 TTTTTTATTAT-TTTTTTATTTTTTTATATATATA-AT-TTTACTT
* *
1050951 TTTTTTATGT-TTTTATTTATTATATATATATATATTAATTTTACTT
1 TTTTTTAT-TATTTT-TTTATT-TTTTTATATATA-TAATTTTACTT
* * *
1050997 TTTTTTATTATTTTATTTATTTGTTTTATTTATATATTTTTTCTT
1 TTTTTTATTATTTT-TTTATTT-TTTTATATATATAATTTTACTT
*
1051042 CTTTTTCT-TTATTTTTTTAATATTTTTTACATAT
1 -TTTTT-TATTATTTTTTT-AT-TTTTTTATATAT
1051076 TTTATTTATT
Statistics
Matches: 105, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
45 17 0.16
46 70 0.67
47 16 0.15
48 2 0.02
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (43 bp):
TTTTTTATTATTTTTTTATTTTTTTATATATATAATTTTACTT
Found at i:1051036 original size:13 final size:12
Alignment explanation
Indices: 1050908--1051036 Score: 58
Period size: 12 Copynumber: 10.9 Consensus size: 12
1050898 TATGTTATTT
1050908 TTTATTATCTTT-
1 TTTATTAT-TTTA
*
1050920 TTTATTAATTTA
1 TTTATTATTTTA
* *
1050932 TATA-TATATATA
1 TTTATTAT-TTTA
*
1050944 TTTACTA-TTT-
1 TTTATTATTTTA
1050954 TTTATGT-TTTTA
1 TTTAT-TATTTTA
*
1050966 TTTATTA-TATA
1 TTTATTATTTTA
* *
1050977 TATA-TATATTA
1 TTTATTATTTTA
* *
1050988 ATT-TTACTTTTT
1 TTTATTA-TTTTA
1051000 TTTATTATTTTA
1 TTTATTATTTTA
*
1051012 TTTATTTGTTTTA
1 TTTA-TTATTTTA
1051025 TTTATATATTTT
1 TTTAT-TATTTT
1051037 TTCTTCTTTT
Statistics
Matches: 85, Mismatches: 19, Indels: 25
0.66 0.15 0.19
Matches are distributed among these distances:
10 6 0.07
11 23 0.27
12 35 0.41
13 21 0.25
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:1051134 original size:68 final size:67
Alignment explanation
Indices: 1050997--1051123 Score: 168
Period size: 67 Copynumber: 1.9 Consensus size: 67
1050987 AATTTTACTT
* * * *
1050997 TTTTTTATTATTTTATTTATTTGTTTTATTTATATATTTTTTCTTCTTTTTCTTTATTTTTTTAA
1 TTTTTTAATATTTTATTTATTTATTTTACTTATATATTTTATCTTCTTTTTCTTTATTTTTTTAA
1051062 TA
66 TA
* *
1051064 TTTTTTACATATTTTATTTATTTATTTTGCTTA-CTATTTTATCTT-TGTTTTCTTTATTTT
1 TTTTTTA-ATATTTTATTTATTTATTTTACTTATATATTTTATCTTCT-TTTTCTTTATTTT
1051124 ATCTTTTATT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
66 1 0.02
67 30 0.58
68 21 0.40
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (67 bp):
TTTTTTAATATTTTATTTATTTATTTTACTTATATATTTTATCTTCTTTTTCTTTATTTTTTTAA
TA
Found at i:1051142 original size:21 final size:20
Alignment explanation
Indices: 1051098--1051144 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
1051088 TTTTGCTTAC
*
1051098 TATTTTATCTTTGTTTTCTT
1 TATTTTATCTTTGTTTTATT
1051118 TATTTTATCTTT-TATTTAATT
1 TATTTTATCTTTGT-TTT-ATT
1051139 TATTTT
1 TATTTT
1051145 TTTCTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 15 0.62
21 8 0.33
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (20 bp):
TATTTTATCTTTGTTTTATT
Found at i:1052113 original size:29 final size:30
Alignment explanation
Indices: 1052063--1052123 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
1052053 AGTTTGAGCT
1052063 ACGAAATGAAACGTTAGACACTAAACTAGA
1 ACGAAATGAAACGTTAGACACTAAACTAGA
* *
1052093 ACGAAAT-AAGCGTTAGGCACTAAACTAGA
1 ACGAAATGAAACGTTAGACACTAAACTAGA
1052122 AC
1 AC
1052124 CAAAGGCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (30 bp):
ACGAAATGAAACGTTAGACACTAAACTAGA
Found at i:1052250 original size:18 final size:18
Alignment explanation
Indices: 1052227--1052261 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1052217 GAAAGTTGAT
1052227 GATTAGGGTTTGGACCAA
1 GATTAGGGTTTGGACCAA
1052245 GATTAGGGTTTGGACCA
1 GATTAGGGTTTGGACCA
1052262 GTGCAGCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.11, G:0.34, T:0.29
Consensus pattern (18 bp):
GATTAGGGTTTGGACCAA
Found at i:1055548 original size:23 final size:23
Alignment explanation
Indices: 1055512--1055573 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
1055502 ATTTTGATCA
1055512 AAAATATTATTTATTAAAATATTT
1 AAAATA-TATTTATTAAAATATTT
* *
1055536 AAAATATATTTATTAATATTTTT
1 AAAATATATTTATTAAAATATTT
1055559 AATAATATATATTAT
1 AA-AATATAT-TTAT
1055574 ATTTTTAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 17 0.50
24 13 0.38
25 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AAAATATATTTATTAAAATATTT
Found at i:1055562 original size:21 final size:21
Alignment explanation
Indices: 1055514--1055581 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
1055504 TTTGATCAAA
**
1055514 AATATTATTTATTAAAATATTTAA
1 AATA-TATTTATT--AATATTTTT
1055538 AATATATTTATTAATATTTTT
1 AATATATTTATTAATATTTTT
*
1055559 AATAATATATATT-ATATTTTT
1 AAT-ATATTTATTAATATTTTT
1055580 AA
1 AA
1055582 CATTATAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
21 20 0.50
22 8 0.20
23 8 0.20
24 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATATATTTATTAATATTTTT
Found at i:1055588 original size:21 final size:22
Alignment explanation
Indices: 1055523--1055588 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
1055513 AAATATTATT
* *
1055523 TATTAAAATATTTAA-AATATA
1 TATTAATATTTTTAACAATATA
*
1055544 TTTATTAATATTTTTAATAATATA
1 --TATTAATATTTTTAACAATATA
*
1055568 TATT-ATATTTTTAACATTATA
1 TATTAATATTTTTAACAATATA
1055589 ATAAAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.39
22 4 0.11
23 13 0.34
24 6 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTAATATTTTTAACAATATA
Found at i:1061092 original size:13 final size:12
Alignment explanation
Indices: 1061070--1061105 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1061060 TTTTTTTCAG
*
1061070 TTTTAATTTTTT
1 TTTTCATTTTTT
1061082 TTTTCATTTTTT
1 TTTTCATTTTTT
1061094 TTTTCATTTTTT
1 TTTTCATTTTTT
1061106 AGTGGGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCATTTTTT
Found at i:1064378 original size:18 final size:19
Alignment explanation
Indices: 1064301--1064379 Score: 51
Period size: 18 Copynumber: 4.2 Consensus size: 19
1064291 ATGGTATGTA
*
1064301 CAAAT-GATAATGTTGTGG
1 CAAATGGATGATGTTGTGG
1064319 CAAAATGAGATGGATGTTGTGG
1 C-AAATG-GAT-GATGTTGTGG
* *
1064341 -AAATGGA--ATTGTGGTAG
1 CAAATGGATGA-TGTTGTGG
*
1064358 CAAATGGAT-ATGTCGTGG
1 CAAATGGATGATGTTGTGG
1064376 CAAA
1 CAAA
1064380 ATAGATTGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
16 1 0.02
17 6 0.12
18 18 0.37
19 7 0.14
20 5 0.10
21 3 0.06
22 9 0.18
ACGTcount: A:0.34, C:0.06, G:0.32, T:0.28
Consensus pattern (19 bp):
CAAATGGATGATGTTGTGG
Found at i:1065859 original size:19 final size:19
Alignment explanation
Indices: 1065831--1065867 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1065821 TCTTTCCTTC
*
1065831 AATATTTAAAAAATAAATA
1 AATATCTAAAAAATAAATA
*
1065850 AATATCTAAAATATAAAT
1 AATATCTAAAAAATAAAT
1065868 TAAACATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AATATCTAAAAAATAAATA
Found at i:1067437 original size:3 final size:3
Alignment explanation
Indices: 1067431--1067495 Score: 80
Period size: 3 Copynumber: 22.0 Consensus size: 3
1067421 AATAATTATT
* *
1067431 TAA TAA TAA T-A TAC TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1067478 -ATT TAA TAA TAA TAA TAA
1 TA-A TAA TAA TAA TAA TAA
1067496 ATTTAAATGA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 3 0.06
3 49 0.92
4 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1067462 original size:12 final size:12
Alignment explanation
Indices: 1067420--1067491 Score: 85
Period size: 12 Copynumber: 5.9 Consensus size: 12
1067410 TTTGGGCTTG
*
1067420 TAATAATTAT-T
1 TAATAATAATAT
1067431 TAATAATAATAT
1 TAATAATAATAT
1067443 ACTAATAATAATAT
1 --TAATAATAATAT
*
1067457 TAATAATAATAA
1 TAATAATAATAT
1067469 TAATAATAA-ATT
1 TAATAATAATA-T
1067481 TAATAATAATA
1 TAATAATAATA
1067492 ATAAATTTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
11 10 0.19
12 30 0.57
13 1 0.02
14 12 0.23
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:1067814 original size:76 final size:76
Alignment explanation
Indices: 1067621--1068344 Score: 1259
Period size: 76 Copynumber: 9.5 Consensus size: 76
1067611 GATGGAAATG
* *
1067621 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGC
1067686 TCCCGAAGGCTTTTTT
65 TCCCGAAGGC----TT
* * * * *
1067702 TTTGGAAACATCATGCATTGTAGGACTTACATATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1067767 CCCGAAGGCTT
66 CCCGAAGGCTT
* * *
1067778 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1067843 CCCGAAGGCTT
66 CCCGAAGGCTT
1067854 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1067919 CCCGAAGGCTT
66 CCCGAAGGCTT
1067930 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1067995 CCCGAAGGCTT
66 CCCGAAGGCTT
1068006 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1068071 CCCGAAGGCTT
66 CCCGAAGGCTT
*
1068082 TTTGGAAACATCATTCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1068147 CCCGAAGGCTT
66 CCCGAAGGCTT
** *
1068158 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAACTTTGAAAACATCAAAAAACT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1068223 CCCGAAGGCTT
66 CCCGAAGGCTT
1068234 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1068299 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
1068310 TTTGGAAACATCATGCACTGTAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATG
1068345 TGAGAAATAG
Statistics
Matches: 621, Mismatches: 22, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
76 554 0.89
80 29 0.05
81 38 0.06
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:1069043 original size:22 final size:23
Alignment explanation
Indices: 1069018--1069072 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
1069008 AATAAAGCTT
*
1069018 TCATCTTTGAAAAGA-GAATCTA
1 TCATCTTTGAAAAAAGGAATCTA
*
1069040 TCATCTTT-AAAAAAGGAGTCTA
1 TCATCTTTGAAAAAAGGAATCTA
1069062 TCATCTTTGAA
1 TCATCTTTGAA
1069073 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 5 0.17
22 22 0.76
23 2 0.07
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (23 bp):
TCATCTTTGAAAAAAGGAATCTA
Found at i:1071598 original size:114 final size:115
Alignment explanation
Indices: 1071307--1071624 Score: 489
Period size: 115 Copynumber: 2.8 Consensus size: 115
1071297 GATCATGCAG
* * * * * *
1071307 TTCATCTTTCAATTCCAATGATAGGTTCTAGG-GTTCCTACCGAATCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGATT-TTGGAGTTCATACCAAATCAGATCAGATAACTCAAAG
* * *
1071371 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAACAAAA
65 AACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAACAAAA
* *
1071422 TTCATCTTTTAAATCCAATGATTAATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
*
1071487 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGC-AAA
66 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAACAAAA
*
1071536 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAATTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
1071601 ACACTTCCAGAAGATGCTA-TGAGC
66 ACACTTCCAGAAGATGCTATTGAGC
1071625 ACATTCATCT
Statistics
Matches: 187, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
113 5 0.03
114 87 0.47
115 95 0.51
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAACAAAA
Found at i:1071693 original size:93 final size:92
Alignment explanation
Indices: 1071527--1071713 Score: 270
Period size: 93 Copynumber: 2.0 Consensus size: 92
1071517 TATTTCTACC
* *
1071527 ATGAGCAAATTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATA
1 ATGAGCAAATTCATCTTCCAAATCCAATGATTGATTTTGGAGTTCATACCAAACCAGATCAGATA
*
1071592 ATTCAAAGAACACTTCCAGAAGATGCT
66 ACTCAAAGAACACTTCCAGAAGATGCT
* * *
1071619 ATGAGCACATTCATCTTCCAAATTCAATGATT-AGTTCTGTGG-TTTCATACCAAACCAGATCAG
1 ATGAGCAAATTCATCTTCCAAATCCAATGATTGA-TT-T-TGGAGTTCATACCAAACCAGATCAG
*
1071682 ATAGCTCAAAGAACACTTCCAGAAGATGCT
63 ATAACTCAAAGAACACTTCCAGAAGATGCT
1071712 AT
1 AT
1071714 TGGGTCTTCT
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
91 1 0.01
92 31 0.36
93 50 0.59
94 3 0.04
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (92 bp):
ATGAGCAAATTCATCTTCCAAATCCAATGATTGATTTTGGAGTTCATACCAAACCAGATCAGATA
ACTCAAAGAACACTTCCAGAAGATGCT
Found at i:1076578 original size:14 final size:14
Alignment explanation
Indices: 1076561--1076599 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
1076551 TAAAAGTATG
1076561 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
1076575 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
1076590 AATG-AAAATG
1 AATGCAAAATG
1076600 CATGTATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:1079360 original size:19 final size:19
Alignment explanation
Indices: 1079332--1079368 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1079322 TCTTTCCTTC
*
1079332 AATATTTAAAAAATAAATA
1 AATATCTAAAAAATAAATA
*
1079351 AATATCTAAAATATAAAT
1 AATATCTAAAAAATAAAT
1079369 TAAACATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AATATCTAAAAAATAAATA
Found at i:1080921 original size:3 final size:3
Alignment explanation
Indices: 1080915--1080980 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
1080905 AATAATTATT
* *
1080915 TAA TAA TAA T-A TAC TAA TAA TAA TATT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
1080960 TAA -ATT TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA
1080981 ATTTAAATGA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
2 3 0.06
3 47 0.89
4 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1080944 original size:27 final size:25
Alignment explanation
Indices: 1080904--1080980 Score: 120
Period size: 24 Copynumber: 3.0 Consensus size: 25
1080894 TTTGGGCTTG
1080904 TAATAATTATTTAATAATAATATACTAA
1 TAATAA-TATTTAATAATAATA-A-TAA
1080932 TAATAATATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
1080957 TAATAA-ATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
1080981 ATTTAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
24 18 0.37
25 9 0.18
26 1 0.02
27 15 0.31
28 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
TAATAATATTTAATAATAATAATAA
Found at i:1087698 original size:20 final size:20
Alignment explanation
Indices: 1087673--1087710 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1087663 CATATGTTAA
1087673 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
*
1087693 AGAATGTATCGATGCACT
1 AGAATGCATCGATGCACT
1087711 TCAAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:1091317 original size:10 final size:10
Alignment explanation
Indices: 1091298--1091340 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
1091288 TTAAATTGTG
*
1091298 AAATATATAA
1 AAATAAATAA
1091308 AAATAAATAAA
1 AAATAAAT-AA
*
1091319 AAATAAATTA
1 AAATAAATAA
*
1091329 AGATAAATAA
1 AAATAAATAA
1091339 AA
1 AA
1091341 TATTGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (10 bp):
AAATAAATAA
Found at i:1091323 original size:21 final size:21
Alignment explanation
Indices: 1091298--1091340 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1091288 TTAAATTGTG
*
1091298 AAATATATAAAAATAAATAAA
1 AAATAAATAAAAATAAATAAA
* *
1091319 AAATAAATTAAGATAAATAAA
1 AAATAAATAAAAATAAATAAA
1091340 A
1 A
1091341 TATTGAAAAT
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:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (21 bp):
AAATAAATAAAAATAAATAAA
Found at i:1091374 original size:16 final size:15
Alignment explanation
Indices: 1091307--1091383 Score: 57
Period size: 15 Copynumber: 4.9 Consensus size: 15
1091297 GAAATATATA
1091307 AAAATAAATAAAAAAT
1 AAAATAAA-AAAAAAT
* * *
1091323 -AAATTAAGATAAAT
1 AAAATAAAAAAAAAT
* * *
1091337 AAAATATTGAAAATATT
1 AAAATA--AAAAAAAAT
1091354 AAAATAAAAACAAAAT
1 AAAATAAAAA-AAAAT
1091370 AAAATAAAAAAAAA
1 AAAATAAAAAAAAA
1091384 GTTAAATTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
14 5 0.11
15 17 0.38
16 13 0.29
17 10 0.22
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAATAAAAAAAAAT
Found at i:1091390 original size:16 final size:16
Alignment explanation
Indices: 1091353--1091383 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1091343 TTGAAAATAT
1091353 TAAAATAAAAACAAAA
1 TAAAATAAAAACAAAA
1091369 TAAAATAAAAA-AAAA
1 TAAAATAAAAACAAAA
1091384 GTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (16 bp):
TAAAATAAAAACAAAA
Found at i:1092647 original size:9 final size:9
Alignment explanation
Indices: 1092634--1092671 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
1092624 CAGACCTTGA
1092634 AAAAAGTAA-
1 AAAAA-TAAT
1092643 AAAAATAAT
1 AAAAATAAT
1092652 AAAAATAAT
1 AAAAATAAT
1092661 AAAAATAAT
1 AAAAATAAT
1092670 AA
1 AA
1092672 TATAAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 3 0.11
9 25 0.89
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (9 bp):
AAAAATAAT
Found at i:1092661 original size:12 final size:13
Alignment explanation
Indices: 1092646--1092688 Score: 58
Period size: 12 Copynumber: 3.6 Consensus size: 13
1092636 AAAGTAAAAA
1092646 AATAATAAA-AAT
1 AATAATAAATAAT
1092658 AATAA-AAATAAT
1 AATAATAAATAAT
1092670 AAT-ATAAATAAT
1 AATAATAAATAAT
1092682 -ATAATAA
1 AATAATAA
1092689 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 6 0.21
12 22 0.79
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:1092670 original size:21 final size:20
Alignment explanation
Indices: 1092640--1092682 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
1092630 TTGAAAAAAG
1092640 TAAAAAAATAATAAAAATAA
1 TAAAAAAATAATAAAAATAA
*
1092660 TAAAAATAATAATATAAATAA
1 TAAAAA-AATAATAAAAATAA
1092681 TA
1 TA
1092683 TAATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAAAAATAATAAAAATAA
Found at i:1092751 original size:36 final size:38
Alignment explanation
Indices: 1092694--1092799 Score: 119
Period size: 38 Copynumber: 2.8 Consensus size: 38
1092684 AATAATTTTT
1092694 AAAAATCATTTTAAAATAAACTATATATTATACA-TT-TTA
1 AAAAAT-ATTTT-AAA-AAACTATATATTATACATTTATTA
* * *
1092733 AAAAAGTATTTT-CAAAACTATATATTATATATTTATTT
1 AAAAA-TATTTTAAAAAACTATATATTATACATTTATTA
*
1092771 TAAAATATTTTAAAAAACTATATATTATA
1 AAAAATATTTTAAAAAACTATATATTATA
1092800 TATACTTTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
36 16 0.28
37 9 0.16
38 22 0.38
39 10 0.17
40 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (38 bp):
AAAAATATTTTAAAAAACTATATATTATACATTTATTA
Found at i:1092802 original size:24 final size:25
Alignment explanation
Indices: 1092775--1092832 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
1092765 TTATTTTAAA
*
1092775 ATAT-TTTAAAAAACTATATATTAT
1 ATATATTTAAAAAACTATATATCAT
*
1092799 ATATACTTTCAAAAACTATATATCAT
1 ATATA-TTTAAAAAACTATATATCAT
*
1092825 ATAGATTT
1 ATATATTT
1092833 TCAAAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 3 0.10
26 22 0.76
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (25 bp):
ATATATTTAAAAAACTATATATCAT
Found at i:1092817 original size:26 final size:26
Alignment explanation
Indices: 1092783--1092839 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
1092773 AAATATTTTA
* *
1092783 AAAAACTATATATTATATATACTTTC
1 AAAAACTATATATCATATAGACTTTC
*
1092809 AAAAACTATATATCATATAGATTTTC
1 AAAAACTATATATCATATAGACTTTC
1092835 AAAAA
1 AAAAA
1092840 TATTTTCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (26 bp):
AAAAACTATATATCATATAGACTTTC
Found at i:1092820 original size:64 final size:63
Alignment explanation
Indices: 1092742--1092877 Score: 186
Period size: 64 Copynumber: 2.1 Consensus size: 63
1092732 AAAAAAGTAT
* *
1092742 TTTC-AAAACTATATATTATATATTTATTTT-AAAATATTTTAAAAAACTATATATTATATATAC
1 TTTCAAAAACTATATATCATATA--GATTTTAAAAATATTTTAAAAAACTATATATTATATATAC
* *
1092805 TTTCAAAAACTATATATCATATAGATTTTCAAAAATATTTTCAAAAACTATATATTATATATAT
1 TTTCAAAAACTATATATCATATAGATTTT-AAAAATATTTTAAAAAACTATATATTATATATAC
*
1092869 TTTTAAAAA
1 TTTCAAAAA
1092878 TGTTTTCAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
62 5 0.08
63 4 0.06
64 56 0.86
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.45
Consensus pattern (63 bp):
TTTCAAAAACTATATATCATATAGATTTTAAAAATATTTTAAAAAACTATATATTATATATAC
Found at i:1092846 original size:12 final size:12
Alignment explanation
Indices: 1092829--1092889 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
1092819 TATCATATAG
1092829 ATTTTCAAAAAT
1 ATTTTCAAAAAT
1092841 ATTTTCAAAAACT
1 ATTTTCAAAAA-T
* *
1092854 ATATATT-ATATAT
1 AT-T-TTCAAAAAT
*
1092867 ATTTTTAAAAAT
1 ATTTTCAAAAAT
*
1092879 GTTTTCAAAAA
1 ATTTTCAAAAA
1092890 ACTATATATC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 2 0.05
12 25 0.64
13 6 0.15
14 4 0.10
15 2 0.05
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (12 bp):
ATTTTCAAAAAT
Found at i:1092856 original size:38 final size:38
Alignment explanation
Indices: 1092805--1092991 Score: 188
Period size: 38 Copynumber: 4.9 Consensus size: 38
1092795 TTATATATAC
* *
1092805 TTTCAAAAACTATATATCATATAGATTTTCAAAAATAT
1 TTTCAAAAACTATATATCATATATATTTTCAAAAATGT
* *
1092843 TTTCAAAAACTATATATTATATATATTTTTAAAAATGT
1 TTTCAAAAACTATATATCATATATATTTTCAAAAATGT
* * *
1092881 TTTCAAAAAACTATATATCATATATATTTTTTAATACTGT
1 TTTC-AAAAACTATATATCATATATA-TTTTCAAAAATGT
1092921 TTTCAAAAA-TATATA--ATATATATTTTCGAAAACCGAT-T
1 TTTCAAAAACTATATATCATATATATTTTC-AAAA---ATGT
* * *
1092959 TTTTAAAAAGTATATAT--TATATGTTTTCAAAAA
1 TTTCAAAAACTATATATCATATATATTTTCAAAAA
1092992 ACATTTTTAA
Statistics
Matches: 129, Mismatches: 12, Indels: 19
0.81 0.08 0.12
Matches are distributed among these distances:
35 5 0.04
36 10 0.08
38 57 0.44
39 42 0.33
40 15 0.12
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (38 bp):
TTTCAAAAACTATATATCATATATATTTTCAAAAATGT
Found at i:1092894 original size:141 final size:141
Alignment explanation
Indices: 1092688--1092943 Score: 326
Period size: 141 Copynumber: 1.8 Consensus size: 141
1092678 TAATATAATA
*
1092688 ATTTTTAAAAATCATTTTAAAATAAACTATATATTATACATTTTAAAAAAGTATTTTCAAAACTA
1 ATTTTCAAAAATCATTTTAAAATAAACTATATATTATACATTTTAAAAAAGTATTTTCAAAACTA
* *
1092753 TATATTATATAT-TTATTTTAA-AATATTTTAAAAAACTATATATTATATATACTTTCAAAAACT
66 TATATCATATATATT-TTTTAATAATATTTTAAAAAA-TATATAATATATATACTTTCAAAAACT
1092816 ATATATCATATAG
129 ATATATCATATAG
* * * *
1092829 ATTTTCAAAAAT-ATTTT-CAA-AAACTATATATTATATATATTTTTAAAAA-TGTTTTCAAAAA
1 ATTTTCAAAAATCATTTTAAAATAAACTATATA-T-TATACATTTTAAAAAAGTATTTTC--AAA
* * *
1092890 ACTATATATCATATATATTTTTTAATACTGTTTTCAAAAATATATAATATATAT
62 ACTATATATCATATATATTTTTTAATAATATTTTAAAAAATATATAATATATAT
1092944 TTTCGAAAAC
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
138 10 0.10
139 9 0.09
140 19 0.19
141 48 0.48
142 13 0.13
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (141 bp):
ATTTTCAAAAATCATTTTAAAATAAACTATATATTATACATTTTAAAAAAGTATTTTCAAAACTA
TATATCATATATATTTTTTAATAATATTTTAAAAAATATATAATATATATACTTTCAAAAACTAT
ATATCATATAG
Found at i:1092897 original size:77 final size:74
Alignment explanation
Indices: 1092805--1092946 Score: 196
Period size: 77 Copynumber: 1.9 Consensus size: 74
1092795 TTATATATAC
1092805 TTTCAAAAACTATATATCATATAGA-TTTTCAAAAATATTTTCAAAAACTATATATTATATATAT
1 TTTCAAAAACTATATATCATATAGATTTTTCAAAAATATTTTCAAAAA-TATATA--ATATATAT
1092869 TTTTAAAAATGT
63 TTTTAAAAATGT
* * * * *
1092881 TTTCAAAAAACTATATATCATATATATTTTTTAATACTGTTTTCAAAAATATATAATATATATTT
1 TTTC-AAAAACTATATATCATATAGATTTTTCAAAAATATTTTCAAAAATATATAATATATATTT
1092946 T
65 T
1092947 CGAAAACCGA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
75 11 0.19
76 4 0.07
77 26 0.44
78 18 0.31
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (74 bp):
TTTCAAAAACTATATATCATATAGATTTTTCAAAAATATTTTCAAAAATATATAATATATATTTT
TAAAAATGT
Found at i:1092967 original size:77 final size:76
Alignment explanation
Indices: 1092805--1092991 Score: 195
Period size: 77 Copynumber: 2.5 Consensus size: 76
1092795 TTATATATAC
1092805 TTTC-AAAAACTATATATCATATAGATTTTCAAAAATATTTTCAAAAACTATATATTATATATAT
1 TTTCAAAAAACTATATATCATATAGATTTTCAAAAATATTTTCAAAAACTATATA-TATATATAT
* *
1092869 TTTTAAAAATGT
65 TTTGAAAAACGT
* * * * *
1092881 TTTCAAAAAACTATATATCATATATATTTTTTAATACTGTTTTCAAAAA-TATATA-ATATATAT
1 TTTCAAAAAACTATATATCATATAGA-TTTTCAAAAATATTTTCAAAAACTATATATATATATAT
*
1092944 TTTCGAAAACCGAT
65 TTT-GAAAAACG-T
** * *
1092958 TTTTTAAAAAGTATATATTATAT-G-TTTTCAAAAA
1 TTTCAAAAAACTATATATCATATAGATTTTCAAAAA
1092992 ACATTTTTAA
Statistics
Matches: 91, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
74 7 0.08
75 11 0.12
76 9 0.10
77 46 0.51
78 18 0.20
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (76 bp):
TTTCAAAAAACTATATATCATATAGATTTTCAAAAATATTTTCAAAAACTATATATATATATATT
TTGAAAAACGT
Found at i:1092980 original size:39 final size:36
Alignment explanation
Indices: 1092816--1093005 Score: 109
Period size: 39 Copynumber: 5.1 Consensus size: 36
1092806 TTCAAAAACT
* * * *
1092816 ATATATCATATAGATTTTC-AAAAATATTTTCAAAA
1 ATATATAATATATATTTTCAAAAAACATTTTTAAAA
* ** *
1092851 ACTATATATTATATATATTTT-TAAAAATGTTTTCAAAAA
1 A-TATATA--ATATATATTTTCAAAAAACATTTT-TAAAA
** *
1092890 ACTATATATCATATATATTTT-TTAATAC-TGTTTTCAAAA
1 A-TATATA--ATATATATTTTCAAAAAACAT-TTTT-AAAA
* *
1092929 ATATATAATATATATTTTCGAAAACCGATTTTTTAAAA
1 ATATATAATATATATTTTCAAAAAAC-A-TTTTTAAAA
* *
1092967 AGTATATATTATATGTTTTCAAAAAACATTTTTAAAA
1 A-TATATAATATATATTTTCAAAAAACATTTTTAAAA
1093004 AT
1 AT
1093006 TACACTATAT
Statistics
Matches: 126, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
35 1 0.01
36 17 0.13
37 13 0.10
38 33 0.26
39 61 0.48
40 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (36 bp):
ATATATAATATATATTTTCAAAAAACATTTTTAAAA
Found at i:1093641 original size:3 final size:3
Alignment explanation
Indices: 1093633--1093668 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1093623 GATTTCAGTG
1093633 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1093669 ACTAATACCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1100133 original size:3 final size:3
Alignment explanation
Indices: 1100125--1100177 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
1100115 AAATTTAAAT
**
1100125 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
1100171 TTTA TTA
1 -TTA TTA
1100178 AATATTACAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:1100145 original size:12 final size:12
Alignment explanation
Indices: 1100130--1100184 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
1100120 TAAATTTATT
1100130 ATTATTATTAAA
1 ATTATTATTAAA
**
1100142 ATTATTATTATT
1 ATTATTATTAAA
*
1100154 ATTATTATTATAT
1 ATTATTATTA-AA
1100167 ATTATTTATTAAA
1 ATTA-TTATTAAA
1100180 TATTA
1 -ATTA
1100185 CAAAGCCCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
12 20 0.56
13 6 0.17
14 10 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:1104400 original size:14 final size:14
Alignment explanation
Indices: 1104381--1104422 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
1104371 TGGGTATTAG
1104381 GTTTAAGAATTTAT
1 GTTTAAGAATTTAT
1104395 GTTTAAGAATTTAT
1 GTTTAAGAATTTAT
*
1104409 GTTTAGGAATTTAT
1 GTTTAAGAATTTAT
1104423 AAATTTAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (14 bp):
GTTTAAGAATTTAT
Found at i:1105432 original size:20 final size:22
Alignment explanation
Indices: 1105387--1105444 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
1105377 GCATGGGTAG
1105387 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
1105411 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
1105431 TGTATCGATGCACT
1 TGCATCGATGCACT
1105445 TCAAGGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:1106829 original size:24 final size:24
Alignment explanation
Indices: 1106798--1106844 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1106788 TGGATGGGTC
1106798 AAAAAATAATTTAAACACTTATTA
1 AAAAAATAATTTAAACACTTATTA
* *
1106822 AAAAAATAATTTAGAGACTTATT
1 AAAAAATAATTTAAACACTTATT
1106845 TTCATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.34
Consensus pattern (24 bp):
AAAAAATAATTTAAACACTTATTA
Found at i:1109607 original size:26 final size:26
Alignment explanation
Indices: 1109578--1109636 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
1109568 GTATAAAAAT
1109578 GAAAATGAGTGAAAAATGAAATTGGG
1 GAAAATGAGTGAAAAATGAAATTGGG
*
1109604 GAAAATGAGTGAGAAATGAAATTGGG
1 GAAAATGAGTGAAAAATGAAATTGGG
*
1109630 AAAAATG
1 GAAAATG
1109637 TAACATACAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.19
Consensus pattern (26 bp):
GAAAATGAGTGAAAAATGAAATTGGG
Found at i:1117443 original size:14 final size:14
Alignment explanation
Indices: 1117424--1117451 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1117414 TGAGGAACAC
1117424 CATGTTAAGAGCAT
1 CATGTTAAGAGCAT
1117438 CATGTTAAGAGCAT
1 CATGTTAAGAGCAT
1117452 GCTACTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
CATGTTAAGAGCAT
Found at i:1117719 original size:21 final size:23
Alignment explanation
Indices: 1117690--1117734 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
1117680 AATTTTTATC
1117690 TTTATATTATT-AAAATAAATTA
1 TTTATATTATTAAAAATAAATTA
*
1117712 TTTA-ATTATTAAAAATATATTA
1 TTTATATTATTAAAAATAAATTA
1117734 T
1 T
1117735 AAAATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTATATTATTAAAAATAAATTA
Found at i:1117733 original size:14 final size:13
Alignment explanation
Indices: 1117692--1117747 Score: 59
Period size: 12 Copynumber: 4.7 Consensus size: 13
1117682 TTTTTATCTT
1117692 TATATTATTAAAA
1 TATATTATTAAAA
* *
1117705 TAAATTATT-TAA
1 TATATTATTAAAA
1117717 T-TATTA--AAAA
1 TATATTATTAAAA
1117727 TATATTA-TAAAA
1 TATATTATTAAAA
1117739 TATATTATT
1 TATATTATT
1117748 TTAATAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 3 0.09
11 9 0.26
12 14 0.40
13 9 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATATTATTAAAA
Found at i:1117762 original size:34 final size:35
Alignment explanation
Indices: 1117692--1117764 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
1117682 TTTTTATCTT
*
1117692 TATATTATTAAAATAAATTATTTAATTATTAAAAA
1 TATATTATTAAAATAAATTATTTAATAATTAAAAA
* *
1117727 TATATTA-TAAAATATATTATTTTAATAATT-TAAA
1 TATATTATTAAAATAAATTA-TTTAATAATTAAAAA
1117761 TATA
1 TATA
1117765 ATAAATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 18 0.53
35 16 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (35 bp):
TATATTATTAAAATAAATTATTTAATAATTAAAAA
Found at i:1122811 original size:2 final size:2
Alignment explanation
Indices: 1122804--1122852 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1122794 ATAAATAAAC
1122804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1122846 AT AT AT A
1 AT AT AT A
1122853 ATTAGAAGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1124780 original size:21 final size:21
Alignment explanation
Indices: 1124724--1124781 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
1124714 TCCGAGTTAC
* * *
1124724 CCGCGACGGCTCCAATAGCGT
1 CCGCGACGACTGCAATAGCAT
* *
1124745 CCGTGAC-AGTCGCAATAGCAT
1 CCGCGACGACT-GCAATAGCAT
1124766 CCGCGACGACTGCAAT
1 CCGCGACGACTGCAAT
1124782 CACGGTAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
20 1 0.04
21 25 0.89
22 2 0.07
ACGTcount: A:0.24, C:0.34, G:0.26, T:0.16
Consensus pattern (21 bp):
CCGCGACGACTGCAATAGCAT
Found at i:1125904 original size:21 final size:21
Alignment explanation
Indices: 1125878--1125938 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
1125868 AATCTTTTTA
* *
1125878 ATGATAATATGTTATTATCTT
1 ATGATAATATGTCAATATCTT
1125899 ATGATAATATGTCAATATCTT
1 ATGATAATATGTCAATATCTT
1125920 ATGATAATATGTCAATATC
1 ATGATAATATGTCAATATC
1125939 ATCATTAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (21 bp):
ATGATAATATGTCAATATCTT
Found at i:1126026 original size:17 final size:17
Alignment explanation
Indices: 1125978--1126031 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
1125968 AATGAAACTT
*
1125978 AAATTAAATATTAAATA
1 AAATTTAATATTAAATA
* * *
1125995 TAATTTAAAAATAAATA
1 AAATTTAATATTAAATA
*
1126012 AAATTTAGTATTAAAATA
1 AAATTTAATATT-AAATA
1126030 AA
1 AA
1126032 GCAAAATAGC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
17 21 0.75
18 7 0.25
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAATTTAATATTAAATA
Found at i:1129383 original size:17 final size:17
Alignment explanation
Indices: 1129351--1129384 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1129341 CCTCACTTCA
**
1129351 GTACTATTTTTTTTAAT
1 GTACTATTTTCGTTAAT
1129368 GTACTATTTTCGTTAAT
1 GTACTATTTTCGTTAAT
1129385 TTATACAACG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (17 bp):
GTACTATTTTCGTTAAT
Found at i:1130081 original size:25 final size:27
Alignment explanation
Indices: 1130039--1130091 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
1130029 TATTACAAAC
1130039 TAAAATAAACAAAC-AAAAGTCCATAA
1 TAAAATAAACAAACAAAAAGTCCATAA
* *
1130065 TAAAAT-AACAAATAAAAAGTCTATAA
1 TAAAATAAACAAACAAAAAGTCCATAA
1130091 T
1 T
1130092 TCATTACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.64, C:0.11, G:0.04, T:0.21
Consensus pattern (27 bp):
TAAAATAAACAAACAAAAAGTCCATAA
Found at i:1130583 original size:21 final size:21
Alignment explanation
Indices: 1130542--1130602 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
1130532 CATTTGAACT
* * *
1130542 GACTGTGGTGGCGTCTAAAAC
1 GACTGTGGTGCCATCTGAAAC
1130563 GACTGTGGTGCCATCTGAAAC
1 GACTGTGGTGCCATCTGAAAC
* ** *
1130584 GGCTACGGTGTCATCTGAA
1 GACTGTGGTGCCATCTGAA
1130603 CTGACGATAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (21 bp):
GACTGTGGTGCCATCTGAAAC
Found at i:1131405 original size:64 final size:64
Alignment explanation
Indices: 1131326--1131486 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 64
1131316 TCCATAACGT
* * * * *
1131326 GTGCATCGATGCACTACATGTGCATCGGTACACAAATCACCTTAGATGTTTTAATCTTAAGGGG
1 GTGCATCGATACACTACATGTGCATCGATACACAAATCACATTAGATGTTTTAATCTTAAAGGA
* ** ** * * *
1131390 GTGCATCGATACACTACTTGTGCATCGATACACTTATGGCATTCGATGTTTTTATTTTAAAGGA
1 GTGCATCGATACACTACATGTGCATCGATACACAAATCACATTAGATGTTTTAATCTTAAAGGA
* *
1131454 GTGCATTGATACACTTCATGTGCATCGATACAC
1 GTGCATCGATACACTACATGTGCATCGATACAC
1131487 CTTGAACAAT
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (64 bp):
GTGCATCGATACACTACATGTGCATCGATACACAAATCACATTAGATGTTTTAATCTTAAAGGA
Found at i:1134315 original size:64 final size:64
Alignment explanation
Indices: 1134243--1134403 Score: 196
Period size: 64 Copynumber: 2.5 Consensus size: 64
1134233 TCCATAACGT
* * * *
1134243 GTGCATCGATGCACTACCTGTGCATCGATACACAAATCACCTTCGATGTTTTAATCTTAAGGGG
1 GTGCATCGATGCACTACATGTGCATCGATACACAAATCACATTCGATGTTTTAATCTTAAAGGA
* ** ** * * *
1134307 GTGCATCGATGCACTACTTGTGCATCGATACACTTATGGCATTTGATGTTTTTATTTTAAAGGA
1 GTGCATCGATGCACTACATGTGCATCGATACACAAATCACATTCGATGTTTTAATCTTAAAGGA
* *
1134371 GTGCATCGATACACTTCATGTGCATCGATACAC
1 GTGCATCGATGCACTACATGTGCATCGATACAC
1134404 CTTGAACAAT
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 83 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTACATGTGCATCGATACACAAATCACATTCGATGTTTTAATCTTAAAGGA
Found at i:1137267 original size:64 final size:64
Alignment explanation
Indices: 1137158--1137318 Score: 180
Period size: 64 Copynumber: 2.5 Consensus size: 64
1137148 TCTATAACGT
* * * * *
1137158 GTGCATCGATGCACTACCTGTGCATCGGTACACAAATCACCTTCGATGTTT-TAATCTTAAGGGG
1 GTGCATCGATGCACTACATGTGCATCGATACACAAATCACATTCGATGTTTCT-ATCTTAAAGGA
* ** ** *
1137222 GTGCATCGATGCACTACTTGTGCATCGATACACTTATGGCATTCGATGTTTCTATTTTAAAGGA
1 GTGCATCGATGCACTACATGTGCATCGATACACAAATCACATTCGATGTTTCTATCTTAAAGGA
* * *
1137286 GTGCATTGATACACTTCATGTGCATCGATACAC
1 GTGCATCGATGCACTACATGTGCATCGATACAC
1137319 CTTGAACAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
64 81 0.99
65 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCACTACATGTGCATCGATACACAAATCACATTCGATGTTTCTATCTTAAAGGA
Found at i:1140485 original size:23 final size:23
Alignment explanation
Indices: 1140431--1140485 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
1140421 TTAAAAAATT
*
1140431 AATTTAAATCAAATTTAAAATCC
1 AATTTAAATCAAATTTAAAATCA
** * * *
1140454 AATCCAAATCCAATTTAAATTTA
1 AATTTAAATCAAATTTAAAATCA
1140477 AATTTAAAT
1 AATTTAAAT
1140486 GATTTAAAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (23 bp):
AATTTAAATCAAATTTAAAATCA
Found at i:1142385 original size:24 final size:24
Alignment explanation
Indices: 1142332--1142387 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
1142322 ACAATCATTT
* * * *
1142332 TAAAATTTTTTAAAAAAATTTATA
1 TAAAATTATTAAAAAAAATTAACA
1142356 TAAAATTATTAAAAAAAATTAACA
1 TAAAATTATTAAAAAAAATTAACA
*
1142380 TGAAATTA
1 TAAAATTA
1142388 AAGGAATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAAATTATTAAAAAAAATTAACA
Found at i:1146659 original size:136 final size:136
Alignment explanation
Indices: 1146494--1146797 Score: 430
Period size: 136 Copynumber: 2.2 Consensus size: 136
1146484 GATTCCTAAA
* * * * *
1146494 AAAATAAATCCAACGATTTTTTTCATTTTACAGAATAGGAAAATAAATCCAACAATTTATTTCCG
1 AAAATAAATTCTACGATTTATTTCATTTTACACAATAGAAAAATAAATCCAACAATTTATTTCCG
* *
1146559 TTTACATATTAGAATCATACAAGATTCTTAGGAAAATAAATTTAACGATTTATTTCCTTATA-CA
66 TTTACATATCAGAATCATACAAGATTCTTAGGAAAATAAATTTAACAATTTATTTCCTT-TACCA
1146623 AAACAAG
130 AAACAAG
* *** **
1146630 AAAATAAATTCTACGATTTATTTCTTTTTACACAATAGAAAAATAAATCCAATGTTTTATTTCTT
1 AAAATAAATTCTACGATTTATTTCATTTTACACAATAGAAAAATAAATCCAACAATTTATTTCCG
* *
1146695 TTTACATATCAGAATCATATAAGATTCTTAGGAAAATAAATTTACCAATTTATTTCCTTTACCAA
66 TTTACATATCAGAATCATACAAGATTCTTAGGAAAATAAATTTAACAATTTATTTCCTTTACCAA
*
1146760 AACAGG
131 AACAAG
* *
1146766 AAAATAAATTTTATGATTTATTTCATTTTACA
1 AAAATAAATTCTACGATTTATTTCATTTTACA
1146798 AATCAAAATC
Statistics
Matches: 148, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
135 2 0.01
136 146 0.99
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (136 bp):
AAAATAAATTCTACGATTTATTTCATTTTACACAATAGAAAAATAAATCCAACAATTTATTTCCG
TTTACATATCAGAATCATACAAGATTCTTAGGAAAATAAATTTAACAATTTATTTCCTTTACCAA
AACAAG
Found at i:1146669 original size:97 final size:97
Alignment explanation
Indices: 1146403--1146669 Score: 286
Period size: 97 Copynumber: 2.8 Consensus size: 97
1146393 AAATAAATTC
* * * * *
1146403 AATCCACCGATTTATTTTCTTTTGCAAATCATGAAAATAAATCCAACGATTTATTTTCTTTTATA
1 AATCCAACGATTTATTTCCTTTTACAAAACAAGAAAATAAATCCAACGATTTA-TTTCTTTT-TA
*
1146468 AAC-A-AGAATCATACAAGATTCCTAAAAAAATA
64 CACAATAGAATCATACAAGATTCCTAAAAAAATA
* * * * * * **
1146500 AATCCAACGATTTTTTTCATTTTACAGAATAGGAAAATAAATCCAACAATTTATTTCCGTTTACA
1 AATCCAACGATTTATTTCCTTTTACAAAACAAGAAAATAAATCCAACGATTTATTTCTTTTTACA
* * * **
1146565 TATTAGAATCATACAAGATTCTTAGGAAAATA
66 CAATAGAATCATACAAGATTCCTAAAAAAATA
** * * *
1146597 AATTTAACGATTTATTTCCTTATACAAAACAAGAAAATAAATTCTACGATTTATTTCTTTTTACA
1 AATCCAACGATTTATTTCCTTTTACAAAACAAGAAAATAAATCCAACGATTTATTTCTTTTTACA
1146662 CAATAGAA
66 CAATAGAA
1146670 AAATAAATCC
Statistics
Matches: 135, Mismatches: 33, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
95 3 0.02
96 6 0.04
97 126 0.93
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (97 bp):
AATCCAACGATTTATTTCCTTTTACAAAACAAGAAAATAAATCCAACGATTTATTTCTTTTTACA
CAATAGAATCATACAAGATTCCTAAAAAAATA
Found at i:1146673 original size:39 final size:39
Alignment explanation
Indices: 1146590--1146700 Score: 118
Period size: 39 Copynumber: 2.8 Consensus size: 39
1146580 AGATTCTTAG
* *
1146590 GAAAATAAATT-TAACGATTTATTTCCTTATACAAAACAA
1 GAAAATAAATTCT-ACGATTTATTTCTTTTTACAAAACAA
* *
1146629 GAAAATAAATTCTACGATTTATTTCTTTTTACACAA-TA
1 GAAAATAAATTCTACGATTTATTTCTTTTTACAAAACAA
* * * *
1146667 GAAAAATAAATCCAATGTTTTATTTCTTTTTACA
1 G-AAAATAAATTCTACGATTTATTTCTTTTTACA
1146701 TATCAGAATC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.03
39 59 0.95
40 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (39 bp):
GAAAATAAATTCTACGATTTATTTCTTTTTACAAAACAA
Found at i:1146732 original size:97 final size:97
Alignment explanation
Indices: 1146629--1146890 Score: 253
Period size: 97 Copynumber: 2.7 Consensus size: 97
1146619 TACAAAACAA
* * * * *
1146629 GAAAATAAATTCTA-CGATTTATTTCTTTTTA-CACAATAGAAAAATAAATCCAATGTTTTATTT
1 GAAAATAAATT-TACCAATTTATTTC-CTTTACCAAAACAGAAAAATAAATCCAATGATTTATTT
* * * **
1146692 CTTTTTACATATCAGAATCATATAAGATTCTTAG
64 CATTTTACAAATCAAAATCATATAAGATTCACAG
* ***
1146726 GAAAATAAATTTACCAATTTATTTCCTTTACCAAAACAGGAAAATAAATTTTATGATTTATTTCA
1 GAAAATAAATTTACCAATTTATTTCCTTTACCAAAACAGAAAAATAAATCCAATGATTTATTTCA
*
1146791 TTTTACAAATCAAAATCATATAAGATTCACAT
66 TTTTACAAATCAAAATCATATAAGATTCACAG
** * * ** * * *
1146823 GAAAATAAATCCACCAACTCATTTCCTTTAGTAAAAGAGGAAAATAAA-CTCAACGATTTATTTC
1 GAAAATAAATTTACCAATTTATTTCCTTTACCAAAACAGAAAAATAAATC-CAATGATTTATTTC
1146887 -TTTT
65 ATTTT
1146891 CATAAAATAG
Statistics
Matches: 136, Mismatches: 26, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
96 10 0.07
97 126 0.93
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (97 bp):
GAAAATAAATTTACCAATTTATTTCCTTTACCAAAACAGAAAAATAAATCCAATGATTTATTTCA
TTTTACAAATCAAAATCATATAAGATTCACAG
Found at i:1146940 original size:64 final size:64
Alignment explanation
Indices: 1146855--1146975 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
1146845 TTCCTTTAGT
* *
1146855 AAAAGAGGAAAATAAACTCAACGATTTATTT-CTTTTCATAAAATAGGAAAATAAATCCTTATAC
1 AAAACAGGAAAATAAACTCAACGAGTTATTTCCTTTTC-TAAAATAGGAAAATAAATCCTTATAC
* * *
1146919 AAAACAGGAAACTAAATTCAACGAGTTGTTTCCTTTTCTAAAATAGGAAAATAAATC
1 AAAACAGGAAAATAAACTCAACGAGTTATTTCCTTTTCTAAAATAGGAAAATAAATC
1146976 ATATGATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 45 0.88
65 6 0.12
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (64 bp):
AAAACAGGAAAATAAACTCAACGAGTTATTTCCTTTTCTAAAATAGGAAAATAAATCCTTATAC
Found at i:1147171 original size:57 final size:57
Alignment explanation
Indices: 1147012--1147250 Score: 188
Period size: 57 Copynumber: 4.2 Consensus size: 57
1147002 AGAATCATAT
** *
1147012 AATGAAATAAATTTAACAATTTATT-TCCTTTAACAAAA-TACTATCATTTAAGATTCTC
1 AATGAAATAAATTTAACAATTTATTCTCC-TT-ACAAAATTAGAATCATTCAAGATT-TC
* * * ** * **
1147070 AA-GAAAATAAATTCAATAA-TTATTTATTTTTA-AAGGA-TAGAATCATTCGCGATTATC
1 AATG-AAATAAATTTAACAATTTA-TTCTCCTTACAA-AATTAGAATCATTCAAGATT-TC
* * *
1147127 AA-GAAAATAAATTTGACAATTTATTTTCCTTACAAAATTA-AATCATTTAAGATTTC
1 AATG-AAATAAATTTAACAATTTATTCTCCTTACAAAATTAGAATCATTCAAGATTTC
* *
1147183 AATGAAATACATTTAACAATTTATTCTCCTTACAAAGTTAGAATCATTCAAGATTCTC
1 AATGAAATAAATTTAACAATTTATTCTCCTTACAAAATTAGAATCATTCAAGATT-TC
*
1147241 AAAGAAATAA
1 AATGAAATAA
1147251 TTTCCATTTA
Statistics
Matches: 143, Mismatches: 28, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
56 38 0.27
57 68 0.48
58 36 0.25
59 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (57 bp):
AATGAAATAAATTTAACAATTTATTCTCCTTACAAAATTAGAATCATTCAAGATTTC
Found at i:1147225 original size:114 final size:115
Alignment explanation
Indices: 1147016--1147231 Score: 255
Period size: 114 Copynumber: 1.9 Consensus size: 115
1147006 TCATATAATG
*
1147016 AAATAAATTTAACAATTTATTTCCTTTAACAAAATACTATCATTTAAGATTCTCAAGAAAATAAA
1 AAATAAATTTAACAATTTATTTCCTTTAACAAAATACAATCATTTAAGATTCTCAAGAAAATAAA
* ** *
1147081 TTCAATAATTATTTATTTTTAAAGGATAGAATCATTCGCGATTATCAAGA
66 TTCAACAATTATTTATCCTTAAAAGATAGAATCATTCGCGATTATCAAGA
*
1147131 AAATAAATTTGACAATTTATTTTCC-TT-ACAAAATTA-AATCATTTAAGATT-TCAATG-AAAT
1 AAATAAATTTAACAATTTA-TTTCCTTTAACAAAA-TACAATCATTTAAGATTCTCAA-GAAAAT
* * * *
1147191 ACATTTAACAATT-TATTCTCCTTACAAAGTTAGAATCATTC
63 AAATTCAACAATTAT-TTATCCTTA-AAAGATAGAATCATTC
1147232 AAGATTCTCA
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
112 1 0.01
113 24 0.28
114 34 0.40
115 22 0.26
116 5 0.06
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.38
Consensus pattern (115 bp):
AAATAAATTTAACAATTTATTTCCTTTAACAAAATACAATCATTTAAGATTCTCAAGAAAATAAA
TTCAACAATTATTTATCCTTAAAAGATAGAATCATTCGCGATTATCAAGA
Found at i:1147572 original size:45 final size:43
Alignment explanation
Indices: 1147420--1147571 Score: 187
Period size: 45 Copynumber: 3.4 Consensus size: 43
1147410 TTAATTTTAC
*
1147420 CAACCCAATAATCACAAAGAACTAATCATTTGATTTTAATTTTCG
1 CAACCCAATAATCA-AAAGAACTAATCATTTGATTTTACTTTT-G
* * *
1147465 CAATCTAATAATCGAAAGTAACTAATCATTTGATTTTACTTTTTG
1 CAACCCAATAATCAAAAG-AACTAATCATTTGATTTTAC-TTTTG
* *
1147510 TAACACAATAATCAAAATGAACTAATCATTTGATTTTACTTTTG
1 CAACCCAATAATCAAAA-GAACTAATCATTTGATTTTACTTTTG
*
1147554 ACAACCCAATAAGCAAAA
1 -CAACCCAATAATCAAAA
1147572 TCCTTGTATT
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
44 9 0.10
45 77 0.85
46 5 0.05
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (43 bp):
CAACCCAATAATCAAAAGAACTAATCATTTGATTTTACTTTTG
Found at i:1147783 original size:14 final size:15
Alignment explanation
Indices: 1147764--1147796 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1147754 GTTATACGGT
1147764 AATAATACCAT-AAC
1 AATAATACCATGAAC
*
1147778 AATAATATCATGAAC
1 AATAATACCATGAAC
1147793 AATA
1 AATA
1147797 TCATGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (15 bp):
AATAATACCATGAAC
Found at i:1148782 original size:14 final size:14
Alignment explanation
Indices: 1148763--1148790 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1148753 AATTCCTTTA
1148763 AATTGATTTTTGAG
1 AATTGATTTTTGAG
1148777 AATTGATTTTTGAG
1 AATTGATTTTTGAG
1148791 TTATTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
AATTGATTTTTGAG
Found at i:1148798 original size:11 final size:13
Alignment explanation
Indices: 1148764--1148804 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
1148754 ATTCCTTTAA
1148764 ATTGATTTTTGAG
1 ATTGATTTTTGAG
1148777 AATTGATTTTTGAG
1 -ATTGATTTTTGAG
1148791 -TT-ATTTTTGA-
1 ATTGATTTTTGAG
1148801 ATTG
1 ATTG
1148805 TGTTTAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 10 0.40
12 2 0.08
14 13 0.52
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
ATTGATTTTTGAG
Found at i:1152523 original size:24 final size:24
Alignment explanation
Indices: 1152495--1152547 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
1152485 CAACGAATCA
*
1152495 GGTCAAAGTCAATGGGTCAGTTTG
1 GGTCAAAGTCAATGGGTCAGGTTG
*
1152519 GGTCAAAGTTAATGGGTCAGGTTG
1 GGTCAAAGTCAATGGGTCAGGTTG
1152543 GGTCA
1 GGTCA
1152548 GTCGGTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.11, G:0.36, T:0.28
Consensus pattern (24 bp):
GGTCAAAGTCAATGGGTCAGGTTG
Found at i:1154290 original size:50 final size:50
Alignment explanation
Indices: 1154236--1154361 Score: 162
Period size: 50 Copynumber: 2.5 Consensus size: 50
1154226 AGATACCCAG
* * * *
1154236 GTATAGCGTGGATCAAGGGGCGCGCTATACCCACGTGGCGCCAGATCACC
1 GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCACCAAATCACC
* ** * *
1154286 GTATATCGCGGGGCAGGGGGCGCACTATACCCACGTGGCACCAAATCAGC
1 GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCACCAAATCACC
*
1154336 GTATAGCGCGGTTCAGGGGGCGCGCT
1 GTATAGCGCGGATCAGGGGGCGCGCT
1154362 TTACTGCTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.21, C:0.29, G:0.35, T:0.16
Consensus pattern (50 bp):
GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCACCAAATCACC
Found at i:1157129 original size:17 final size:16
Alignment explanation
Indices: 1157107--1157138 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1157097 TATGTACAAC
1157107 CAATGAATAAATAAATA
1 CAATGAATAAA-AAATA
1157124 CAATGAATAAAAAAT
1 CAATGAATAAAAAAT
1157139 GACCATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (16 bp):
CAATGAATAAAAAATA
Found at i:1157344 original size:2 final size:2
Alignment explanation
Indices: 1157339--1157363 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1157329 TAATAAAATA
1157339 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
1157364 AATTAGTAAA
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
Done.