Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 61 of 203
Found at i:19571141 original size:12 final size:12
Alignment explanation
Indices: 19571113--19571148 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
19571103 GTAATGAATT
*
19571113 CATTTCTCATTTT
1 CATTTC-CATTTC
19571126 CATTTCCATTTC
1 CATTTCCATTTC
19571138 CATTTCCATTT
1 CATTTCCATTT
19571149 TGAGAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (12 bp):
CATTTCCATTTC
Found at i:19571147 original size:18 final size:19
Alignment explanation
Indices: 19571113--19571148 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
19571103 GTAATGAATT
*
19571113 CATTTCTCATTTTCATTTC
1 CATTTCTCATTTCCATTTC
19571132 CATTTC-CATTTCCATTT
1 CATTTCTCATTTCCATTT
19571149 TGAGAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (19 bp):
CATTTCTCATTTCCATTTC
Found at i:19584282 original size:28 final size:28
Alignment explanation
Indices: 19584251--19584320 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
19584241 GATTTTTGCA
* *
19584251 TCCCATCAGACTTACCTCGTGTTTACTG
1 TCCCAACAGACTTACCTCGTGTTTAATG
*
19584279 TCCCCAAC-GAACTTACCTTGTGTTTAATG
1 T-CCCAACAG-ACTTACCTCGTGTTTAATG
*
19584308 TCCAAACAGACTT
1 TCCCAACAGACTT
19584321 TATCTGTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 11 0.31
29 24 0.69
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (28 bp):
TCCCAACAGACTTACCTCGTGTTTAATG
Found at i:19586798 original size:20 final size:20
Alignment explanation
Indices: 19586761--19586814 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
19586751 GTTCAACACC
* *
19586761 ATTTTTTTAATAATTTTTATGT
1 ATTTTTATAA-AATTTTTA-GA
19586783 ATTTTTATAAAA-TTTTAGA
1 ATTTTTATAAAATTTTTAGA
19586802 ATTTTTATCAAAA
1 ATTTTTAT-AAAA
19586815 GATCAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 9 0.31
20 9 0.31
21 2 0.07
22 9 0.31
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTTTTATAAAATTTTTAGA
Found at i:19587687 original size:21 final size:20
Alignment explanation
Indices: 19587649--19587691 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
19587639 ATATTGTGTT
* * *
19587649 TATATTTTTATTTTATAACTA
1 TATATTTTGATATGATAA-TA
19587670 TATATTTTGATATGATAATA
1 TATATTTTGATATGATAATA
19587690 TA
1 TA
19587692 AATTAGTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATTTTGATATGATAATA
Found at i:19591723 original size:24 final size:24
Alignment explanation
Indices: 19591696--19591747 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
19591686 TTAGTAAGTC
*
19591696 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
19591720 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
19591744 AAAT
1 AAAT
19591748 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:19593162 original size:24 final size:24
Alignment explanation
Indices: 19593135--19593186 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
19593125 TTAGTAAGTC
*
19593135 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
19593159 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
19593183 AAAT
1 AAAT
19593187 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:19593920 original size:13 final size:13
Alignment explanation
Indices: 19593904--19593928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19593894 AAAATTCCAC
19593904 AAAAAAATTAGAT
1 AAAAAAATTAGAT
19593917 AAAAAAATTAGA
1 AAAAAAATTAGA
19593929 CTTGTTTAAA
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:0.08, T:0.20
Consensus pattern (13 bp):
AAAAAAATTAGAT
Found at i:19603063 original size:26 final size:28
Alignment explanation
Indices: 19603022--19603082 Score: 99
Period size: 27 Copynumber: 2.2 Consensus size: 28
19603012 TTAAAGTTCA
19603022 CCACAAAGGCAATCC-TTTCATAGATCG
1 CCACAAAGGCAATCCTTTTCATAGATCG
*
19603049 CCACAAAGGC-CTCCTTTTCATAGATCG
1 CCACAAAGGCAATCCTTTTCATAGATCG
19603076 CCACAAA
1 CCACAAA
19603083 TACTTCCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.33, C:0.33, G:0.13, T:0.21
Consensus pattern (28 bp):
CCACAAAGGCAATCCTTTTCATAGATCG
Found at i:19603090 original size:27 final size:27
Alignment explanation
Indices: 19603037--19603093 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
19603027 AAGGCAATCC
*
19603037 TTTCATAGATCGCCACAAAGGCCTCCT
1 TTTCATAGATCGCCACAAAGACCTCCT
* *
19603064 TTTCATAGATCGCCACAAATACTTCCT
1 TTTCATAGATCGCCACAAAGACCTCCT
19603091 TTT
1 TTT
19603094 TCTGACGTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (27 bp):
TTTCATAGATCGCCACAAAGACCTCCT
Found at i:19603330 original size:16 final size:17
Alignment explanation
Indices: 19603309--19603342 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19603299 AATATATATA
19603309 TTAAG-TTTTTTATGTT
1 TTAAGTTTTTTTATGTT
19603325 TTAAGTTTTTTTATGTT
1 TTAAGTTTTTTTATGTT
19603342 T
1 T
19603343 AAAATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (17 bp):
TTAAGTTTTTTTATGTT
Found at i:19603444 original size:20 final size:20
Alignment explanation
Indices: 19603421--19603461 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
19603411 CCCCTGACAG
*
19603421 TTTAAGTTTTCAATTTTATT
1 TTTAAGTTTTCAATTTCATT
*
19603441 TTTATGTTTTCAATTTCATT
1 TTTAAGTTTTCAATTTCATT
19603461 T
1 T
19603462 CCCCGACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTAAGTTTTCAATTTCATT
Found at i:19603525 original size:13 final size:13
Alignment explanation
Indices: 19603502--19603550 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
19603492 TATATATTTA
19603502 TTTTTATGTTTAAG
1 TTTTTA-GTTTAAG
19603516 TTTTTAGTTTAAG
1 TTTTTAGTTTAAG
* * *
19603529 TTTTCAATTTTA-
1 TTTTTAGTTTAAG
19603541 TTTTTAGTTT
1 TTTTTAGTTT
19603551 TCAATTTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 8 0.27
13 16 0.53
14 6 0.20
ACGTcount: A:0.20, C:0.02, G:0.10, T:0.67
Consensus pattern (13 bp):
TTTTTAGTTTAAG
Found at i:19603539 original size:19 final size:19
Alignment explanation
Indices: 19603517--19603557 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
19603507 ATGTTTAAGT
19603517 TTTTAGTTTAAGTTTTCAA
1 TTTTAGTTTAAGTTTTCAA
* *
19603536 TTTTATTTTTAGTTTTCAA
1 TTTTAGTTTAAGTTTTCAA
19603555 TTT
1 TTT
19603558 CATTTCCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.07, T:0.66
Consensus pattern (19 bp):
TTTTAGTTTAAGTTTTCAA
Found at i:19603819 original size:16 final size:16
Alignment explanation
Indices: 19603798--19603836 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
19603788 ATTTTGTTAC
*
19603798 AACAATTAATATAATT
1 AACAATTAATACAATT
19603814 AACAATTAATACAATT
1 AACAATTAATACAATT
*
19603830 AATAATT
1 AACAATT
19603837 TGATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (16 bp):
AACAATTAATACAATT
Found at i:19603927 original size:16 final size:16
Alignment explanation
Indices: 19603906--19603947 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
19603896 AATAATTTGA
*
19603906 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
19603922 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
19603938 TAGTTTTAAT
1 TAATTTTAAT
19603948 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:19611057 original size:105 final size:105
Alignment explanation
Indices: 19610942--19611135 Score: 243
Period size: 106 Copynumber: 1.8 Consensus size: 105
19610932 TATAATTTTT
*
19610942 ATATATTAAAAT-T-TTATTTTCTCCACCTACATTGTAGGTATGATAATTTCTAATATTATAAAA
1 ATATATTAAAATATATTATTTT-T-CACCTACATTGTAGGTATGATAAATTCTAATATTATAAAA
19611005 TCAGA-TAATTACTTCAAATATCATTATTATTTTTATATGTTAA
64 T-A-ATTAATTACTTCAAATATCATTATTATTTTTATATGTTAA
*** * * *
19611048 ATAT-TTAAAATATCATTATTTTTTTTCTACATTGTGGGTATGGTAAATTCTAATGTTATAAAAT
1 ATATATTAAAATAT-ATTATTTTTCACCTACATTGTAGGTATGATAAATTCTAATATTATAAAAT
*
19611112 AATTAATTATTTCAAATATCATTA
65 AATTAATTACTTCAAATATCATTA
19611136 GTTTTAGTGA
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
104 1 0.01
105 28 0.37
106 39 0.51
107 1 0.01
108 7 0.09
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (105 bp):
ATATATTAAAATATATTATTTTTCACCTACATTGTAGGTATGATAAATTCTAATATTATAAAATA
ATTAATTACTTCAAATATCATTATTATTTTTATATGTTAA
Found at i:19614577 original size:16 final size:16
Alignment explanation
Indices: 19614545--19614582 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19614535 AATAATAGTA
*
19614545 AAATAATAATTAAATT
1 AAATAATAATGAAATT
*
19614561 AAATAATAATGATATT
1 AAATAATAATGAAATT
19614577 -AATAAT
1 AAATAAT
19614583 TAGGGTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
AAATAATAATGAAATT
Found at i:19616632 original size:19 final size:20
Alignment explanation
Indices: 19616608--19616647 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
19616598 ATCTTTGATA
*
19616608 AATTATTTTTTTC-TAAATT
1 AATTATGTTTTTCTTAAATT
19616627 AATTATGTTTTTCTTAAATT
1 AATTATGTTTTTCTTAAATT
19616647 A
1 A
19616648 TTAAGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (20 bp):
AATTATGTTTTTCTTAAATT
Found at i:19617215 original size:33 final size:30
Alignment explanation
Indices: 19617138--19617222 Score: 91
Period size: 33 Copynumber: 2.7 Consensus size: 30
19617128 AATGTATGTG
*
19617138 TATATATAATATATACCTATAGGGGTTTTGTTA
1 TATATATAATA-ATA--TATATGGGTTTTGTTA
*
19617171 TTTATAT-ATAATATATATGGGTTTTGGTGCTA
1 TATATATAATAATATATATGGGTTTT-GT--TA
19617203 TATATATAATAATATATATG
1 TATATATAATAATATATATG
19617223 CATGCATGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
29 11 0.24
30 2 0.04
31 3 0.07
32 11 0.24
33 18 0.40
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (30 bp):
TATATATAATAATATATATGGGTTTTGTTA
Found at i:19617220 original size:35 final size:31
Alignment explanation
Indices: 19617138--19617221 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 31
19617128 AATGTATGTG
19617138 TATATATAATATATACCTATAGGGGTTTTGTTA
1 TATATATAATATATA--TATAGGGGTTTTGTTA
* *
19617171 TTTATAT-ATA-ATATATATGGGTTTTGGTGCTA
1 TATATATAATATATATATAGGGGTTTT-GT--TA
19617203 TATATATAATAATATATAT
1 TATATATAAT-ATATATAT
19617222 GCATGCATGC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
29 11 0.26
30 2 0.05
31 3 0.07
32 11 0.26
33 8 0.19
34 1 0.02
35 6 0.14
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.48
Consensus pattern (31 bp):
TATATATAATATATATATAGGGGTTTTGTTA
Found at i:19617723 original size:21 final size:21
Alignment explanation
Indices: 19617695--19617743 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
19617685 TTGGTGTTAG
*
19617695 AAAA-AAACATGTTAGCGAAC
1 AAAATAAACACGTTAGCGAAC
19617715 AAAATAAACACGTTAGCGAAC
1 AAAATAAACACGTTAGCGAAC
19617736 AAAATAAA
1 AAAATAAA
19617744 TTAATTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.59, C:0.14, G:0.12, T:0.14
Consensus pattern (21 bp):
AAAATAAACACGTTAGCGAAC
Found at i:19620993 original size:107 final size:104
Alignment explanation
Indices: 19620843--19621121 Score: 231
Period size: 107 Copynumber: 2.6 Consensus size: 104
19620833 GAAATGACAT
** * * * * * *
19620843 AATTGAATTGATAAACCATCATTGTCGGGAAATCTAAGATGGTAAGCCATTGTCGTCGGGCAATC
1 AATTGAATCAATAAACCATCGTTGTCAGGCAATCCAGGGTGGTAAGCCATT-TCGTCGGGCAATC
*
19620908 CTAGGTGGCAGGT-AGTCA-TTGCCGGACAACCCATGATAACAA
65 C-A-G-GGCA-GTAAGTCATTTGCCGGACAACCCAAGATAACAA
* * * * *
19620950 AATTGGATCAATAAACCATCGTTG-CTAGGCAATCCAGGGTGGTAAGTCATCCTCGCCAGGCAAT
1 AATTGAATCAATAAACCATCGTTGTC-AGGCAATCCAGGGTGGTAAGCCAT-TTCGTCGGGCAAT
* * * * * *
19621014 CCAGGGTAGTAAGTCATTGTTGTCGGGCAACTCAAGATGACAG
64 CCAGGGCAGTAAGTCA-T-TTGCCGGACAACCCAAGATAACAA
* * * *
19621057 AATTGAATCGATAAACCATCGTTGTCAGGCAATCCGGGGTGGTAAGCTATCTTCGTTGGGCAATC
1 AATTGAATCAATAAACCATCGTTGTCAGGCAATCCAGGGTGGTAAGCCAT-TTCGTCGGGCAATC
19621122 TGGGGTGGTA
Statistics
Matches: 136, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
103 2 0.01
104 8 0.06
105 1 0.01
106 2 0.01
107 122 0.90
108 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (104 bp):
AATTGAATCAATAAACCATCGTTGTCAGGCAATCCAGGGTGGTAAGCCATTTCGTCGGGCAATCC
AGGGCAGTAAGTCATTTGCCGGACAACCCAAGATAACAA
Found at i:19624363 original size:12 final size:12
Alignment explanation
Indices: 19624346--19624383 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
19624336 TGAAAAGTTT
19624346 AATAATAATATA
1 AATAATAATATA
19624358 AATAATAATATA
1 AATAATAATATA
* *
19624370 TATAATGATATA
1 AATAATAATATA
19624382 AA
1 AA
19624384 AGTTTAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
AATAATAATATA
Found at i:19624403 original size:41 final size:43
Alignment explanation
Indices: 19624315--19624405 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 43
19624305 ATTAGTCTAG
19624315 ATAAGTAATATATATATAAAATGAAAAGTTTAATAATAATATAA
1 ATAA-TAATATATATATAAAATGAAAAGTTTAATAATAATATAA
* * *
19624359 ATAATAATATATATAATGATAT-AAAAGTTTAATAA-CATAT-A
1 ATAATAATATATAT-ATAAAATGAAAAGTTTAATAATAATATAA
19624400 ATAATA
1 ATAATA
19624406 TGTATAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 7 0.16
42 4 0.09
43 23 0.53
44 9 0.21
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.35
Consensus pattern (43 bp):
ATAATAATATATATATAAAATGAAAAGTTTAATAATAATATAA
Found at i:19626298 original size:44 final size:44
Alignment explanation
Indices: 19626249--19626604 Score: 248
Period size: 44 Copynumber: 7.6 Consensus size: 44
19626239 TTTAATCCAT
*
19626249 TCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAACTTCAATCTGC
* **
19626293 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAACTTCAATC---TGC
* * ** * * * *
19626340 GATGTACTCTACTATAA-CTTCAGAGAGATAAGACCATTTATTTTAATCTGC
1 ----T-C-C-ACTGTAATC-TCAGGGAGATAAGATTACTAACTTCAATCTGC
*
19626391 TCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAACTTCAATCTGC
* **
19626435 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAACTTCAATC---TGC
* * ** * * * *
19626482 GATGTACTCTACTATAA-CTTCAGAGAGATAAGACCATTTATTTTAATCTGC
1 ----T-C-C-ACTGTAATC-TCAGGGAGATAAGATTACTAACTTCAATCTGC
* *
19626533 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAACTTCAATCTGC
* *
19626577 TCCGCTGTAATCTCAGGGAGATTAGATT
1 TCCACTGTAATCTCAGGGAGATAAGATT
19626605 TCTGGCTTCA
Statistics
Matches: 238, Mismatches: 50, Indels: 48
0.71 0.15 0.14
Matches are distributed among these distances:
44 158 0.66
45 4 0.02
46 2 0.01
47 8 0.03
51 8 0.03
52 2 0.01
53 4 0.02
54 52 0.22
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATTACTAACTTCAATCTGC
Found at i:19626305 original size:142 final size:141
Alignment explanation
Indices: 19626048--19626761 Score: 1124
Period size: 142 Copynumber: 5.0 Consensus size: 141
19626038 GAGATAAGAC
* * *
19626048 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATTTCGCTCCACT
1 CTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGA-CCTTTATTTTAA-TCCGCTCCACT
* *
19626113 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCGGCTCCGCGGTAATCTCAGGGAGATAAGAT
64 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
* *
19626178 ATCTAGCTTCAAT
129 TTCTGGCTTCAAT
**
19626191 CTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCATTCCACTG
1 CTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGA-CCTTTATTTTAATCCGCTCCACTG
* *
19626256 TAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATT
65 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
19626321 TCTGGCTTCAAT
130 TCTGGCTTCAAT
* *
19626333 CTGATGCGATGTACTCTACTATAACTTCAGAGAGATAAGACCATTTATTTTAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGACC-TTTATTTTAATCCGCTCCACTG
* *
19626398 TAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATT
65 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
19626463 TCTGGCTTCAAT
130 TCTGGCTTCAAT
* *
19626475 CTGATGCGATGTACTCTACTATAACTTCAGAGAGATAAGACCATTTATTTTAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGACC-TTTATTTTAATCCGCTCCACTG
*
19626540 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATTAGATT
65 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
19626605 TCTGGCTTCAAT
130 TCTGGCTTCAAT
* * * * * *
19626617 ATGATGTGATCTACTATACTGTAGCTTTAGAGAGATAAGACCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGA-CCTTTATTTTAATCCGCTCCACTG
19626682 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA-AAGGAT
65 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAA-GAT
* *
19626746 TTGTGGCTTAAAT
129 TTCTGGCTTCAAT
19626759 CTG
1 CTG
19626762 TTTCCTTACA
Statistics
Matches: 538, Mismatches: 30, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
141 3 0.01
142 482 0.90
143 53 0.10
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (141 bp):
CTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGACCTTTATTTTAATCCGCTCCACTGT
AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
CTGGCTTCAAT
Found at i:19626613 original size:44 final size:44
Alignment explanation
Indices: 19626526--19626746 Score: 146
Period size: 44 Copynumber: 4.8 Consensus size: 44
19626516 CATTTATTTT
19626526 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
* * *
19626570 AATCTGCTCCGCTGTAATCTCAGGGAGATTA-GATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGA-TAGGATTACTAGCTTC
* * * * * * * *
19626614 AATATGATGTGATCTACTATACTGT-AGCTTTAGAGAGATAAGACCCTT--TA-TTTT
1 ---A--ATCTG--CT-C--CACTGTAATC-TCAGGGAGATAGGA---TTACTAGCTTC
*
19626668 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
* *
19626712 AATCTGCTCCGCTGTAATCTCAGGGAGAAAGGATT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATT
19626747 TGTGGCTTAA
Statistics
Matches: 133, Mismatches: 24, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
41 2 0.02
43 2 0.02
44 88 0.66
45 4 0.03
46 1 0.01
47 3 0.02
49 7 0.05
51 3 0.02
52 1 0.01
53 4 0.03
54 15 0.11
55 1 0.01
57 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
Found at i:19626760 original size:44 final size:44
Alignment explanation
Indices: 19626668--19626761 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
19626658 CCTTTATTTT
* * *
19626668 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGAAAGGATTACTAGCTTA
* ** *
19626712 AATCTGCTCCGCTGTAATCTCAGGGAGAAAGGATTTGTGGCTTA
1 AATCTGCTCCACTGTAATCTCAGGGAGAAAGGATTACTAGCTTA
19626756 AATCTG
1 AATCTG
19626762 TTTCCTTACA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGAAAGGATTACTAGCTTA
Found at i:19628136 original size:6 final size:6
Alignment explanation
Indices: 19628125--19628159 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
19628115 GCCTCTCCAT
*
19628125 TTTTCA TTTTCA TTTTCA TTTTTCA TTATCA TTTT
1 TTTTCA TTTTCA TTTTCA -TTTTCA TTTTCA TTTT
19628160 TCATCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:19628140 original size:13 final size:13
Alignment explanation
Indices: 19628125--19628163 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
19628115 GCCTCTCCAT
19628125 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
19628137 TTTTCATTTTTCA
1 TTTTCATTTTTCA
*
19628150 TTATCATTTTTCA
1 TTTTCATTTTTCA
19628163 T
1 T
19628164 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:19628144 original size:19 final size:19
Alignment explanation
Indices: 19628122--19628159 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19628112 TTAGCCTCTC
*
19628122 CATTTTTCATTTTCATTTT
1 CATTTTTCATTATCATTTT
19628141 CATTTTTCATTATCATTTT
1 CATTTTTCATTATCATTTT
19628160 TCATCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (19 bp):
CATTTTTCATTATCATTTT
Found at i:19629086 original size:29 final size:29
Alignment explanation
Indices: 19629054--19629109 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
19629044 TTTCTTTTCT
*
19629054 TTTCATATTTTT-ATTTTGACTTTGATTGA
1 TTTC-TATTTTTGATTTTGACCTTGATTGA
* *
19629083 TTTCTCTTTTTGCTTTTGACCTTGATT
1 TTTCTATTTTTGATTTTGACCTTGATT
19629110 TTTTTCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.14, C:0.12, G:0.11, T:0.62
Consensus pattern (29 bp):
TTTCTATTTTTGATTTTGACCTTGATTGA
Found at i:19630855 original size:20 final size:19
Alignment explanation
Indices: 19630830--19630867 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
19630820 AATGGATTTT
*
19630830 AATGCATGTAATGCAATGCA
1 AATGCATGAAATG-AATGCA
19630850 AATGCATGAAATGAATGC
1 AATGCATGAAATGAATGC
19630868 CTAGAGAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (19 bp):
AATGCATGAAATGAATGCA
Found at i:19635134 original size:35 final size:32
Alignment explanation
Indices: 19635057--19635118 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
19635047 TTTGTATATG
*
19635057 TATTTGAAATATTTAACATATAAACATAATGA
1 TATTTGAAATATTTAACATATAAAAATAATGA
* *
19635089 TATTTGAAATATTTTACATATAAAAGTAAT
1 TATTTGAAATATTTAACATATAAAAATAAT
19635119 AATGTTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.40
Consensus pattern (32 bp):
TATTTGAAATATTTAACATATAAAAATAATGA
Found at i:19635345 original size:99 final size:98
Alignment explanation
Indices: 19635235--19635412 Score: 270
Period size: 98 Copynumber: 1.8 Consensus size: 98
19635225 AAATTAATTT
*
19635235 ATATATAAAATATATTTTCATTATATCACA-TACATATTTATTATTATT-TTTATATAAATAAAT
1 ATATATAAAATATATTTTCATTATAT-A-ATTACATATTTATTATT-TTATTTATATAAATAAAA
*
19635298 GAGTTATTAATTAAAAAATATTTTTAACATAATGAA
63 GAGCTATTAATTAAAAAATATTTTTAACATAATGAA
* **
19635334 ATATATCAAATATATTTTCATTATATAATTACATATTTATTATTTTATTTATATGGATAAAAGAG
1 ATATATAAAATATATTTTCATTATATAATTACATATTTATTATTTTATTTATATAAATAAAAGAG
19635399 CTATTAATTAAAAA
66 CTATTAATTAAAAA
19635413 GATAAAGTAA
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
97 3 0.04
98 44 0.61
99 25 0.35
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (98 bp):
ATATATAAAATATATTTTCATTATATAATTACATATTTATTATTTTATTTATATAAATAAAAGAG
CTATTAATTAAAAAATATTTTTAACATAATGAA
Found at i:19639376 original size:37 final size:37
Alignment explanation
Indices: 19639335--19639409 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
19639325 ATGTATGCCA
*
19639335 TGGTTTGTTCACGTCCAGATTTATCATATGCAGTTAG
1 TGGTTTGCTCACGTCCAGATTTATCATATGCAGTTAG
*
19639372 TGGTTTGCTCACGTCCAGATTTATCATATGTAGTTAG
1 TGGTTTGCTCACGTCCAGATTTATCATATGCAGTTAG
19639409 T
1 T
19639410 ACAGTTAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.41
Consensus pattern (37 bp):
TGGTTTGCTCACGTCCAGATTTATCATATGCAGTTAG
Found at i:19639975 original size:7 final size:7
Alignment explanation
Indices: 19639963--19639988 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19639953 TTGTGATTTT
19639963 TTATTAA
1 TTATTAA
19639970 TTATTAA
1 TTATTAA
19639977 TTATTAA
1 TTATTAA
19639984 TTATT
1 TTATT
19639989 TAAGATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTATTAA
Found at i:19640096 original size:60 final size:60
Alignment explanation
Indices: 19640032--19640150 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
19640022 TTTCTTTTTA
* * * *
19640032 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAACTTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
19640092 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
19640151 AGATTAGTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
Found at i:19640737 original size:21 final size:21
Alignment explanation
Indices: 19640700--19640739 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19640690 TGACAAATGC
*
19640700 TTTTATTAAAATCATTTAAAA
1 TTTTATTAAAATAATTTAAAA
19640721 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
19640740 CACCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTATTAAAATAATTTAAAA
Found at i:19641038 original size:17 final size:17
Alignment explanation
Indices: 19641016--19641048 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19641006 ATAATGTAAT
*
19641016 TTTATTTGATTTTTTTA
1 TTTATTTAATTTTTTTA
19641033 TTTATTTAATTTTTTT
1 TTTATTTAATTTTTTT
19641049 TACTGATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTATTTAATTTTTTTA
Found at i:19643559 original size:27 final size:27
Alignment explanation
Indices: 19643422--19643543 Score: 190
Period size: 27 Copynumber: 4.5 Consensus size: 27
19643412 GCCTCTGAGT
* * * *
19643422 TAGGCACAACTAGTAGCGCCTGTCAAA
1 TAGGCTCAACTAGTCGCGCCTTTCAGA
19643449 TAGGCTCAACTAGTCGCGCCTTTCAGA
1 TAGGCTCAACTAGTCGCGCCTTTCAGA
19643476 TAGGCTCAACTAGTCGCGCCTTTCAGA
1 TAGGCTCAACTAGTCGCGCCTTTCAGA
* *
19643503 TAGGCTCAACTAGTCGTGCCTTTGAGA
1 TAGGCTCAACTAGTCGCGCCTTTCAGA
19643530 TAGGCTCAACTAGT
1 TAGGCTCAACTAGT
19643544 TGTGCCTATG
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (27 bp):
TAGGCTCAACTAGTCGCGCCTTTCAGA
Found at i:19643566 original size:27 final size:27
Alignment explanation
Indices: 19643408--19643566 Score: 75
Period size: 27 Copynumber: 5.9 Consensus size: 27
19643398 GCCCCACCAT
* ** *
19643408 TCGTGCCTCTGAGTTAGGCACAACTAG
1 TCGTGCCTATGAAATAGCCACAACTAG
* * * * * *
19643435 TAGCGCCTGTCAAATAGGCTCAACTAG
1 TCGTGCCTATGAAATAGCCACAACTAG
* * * * * *
19643462 TCGCGCCTTTCAGATAGGCTCAACTAG
1 TCGTGCCTATGAAATAGCCACAACTAG
* * * * * *
19643489 TCGCGCCTTTCAGATAGGCTCAACTAG
1 TCGTGCCTATGAAATAGCCACAACTAG
* * * *
19643516 TCGTGCCTTTGAGATAGGCTCAACTAG
1 TCGTGCCTATGAAATAGCCACAACTAG
*
19643543 TTGTGCCTATGAAATAGCCACAAC
1 TCGTGCCTATGAAATAGCCACAAC
19643567 CTATATTTCG
Statistics
Matches: 115, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 115 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (27 bp):
TCGTGCCTATGAAATAGCCACAACTAG
Found at i:19645413 original size:12 final size:13
Alignment explanation
Indices: 19645395--19645424 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19645385 TGAAAAAAGA
*
19645395 AAAAAAACAATTG
1 AAAAAAGCAATTG
19645408 AAAAAAGCAATTG
1 AAAAAAGCAATTG
19645421 AAAA
1 AAAA
19645425 CAAAGAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.13
Consensus pattern (13 bp):
AAAAAAGCAATTG
Found at i:19647934 original size:27 final size:26
Alignment explanation
Indices: 19647889--19647945 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
19647879 TCCAGAAAAG
19647889 AAAATAAAAATATTCAAAA-TTATAA
1 AAAATAAAAATATTCAAAATTTATAA
*
19647914 AAAATAGAAAGATATTTAAAATTTATAA
1 AAAATA-AAA-ATATTCAAAATTTATAA
19647942 AAAA
1 AAAA
19647946 AATTAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 9 0.32
28 10 0.36
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (26 bp):
AAAATAAAAATATTCAAAATTTATAA
Found at i:19649467 original size:63 final size:63
Alignment explanation
Indices: 19649351--19649508 Score: 178
Period size: 63 Copynumber: 2.5 Consensus size: 63
19649341 TTTTGACGCC
* * * * *
19649351 ACACGGCCGTGTGT-CTAGCCATGTAACTCACTGTTTTGGAATTTGAGGTACACAAGCTAGAG
1 ACACGGGCGTGTGTCCAAGCCGTGTAACTCACTGTTCTAGAATTTGAGGTACACAAGCTAGAG
* * *
19649413 ACACGGGCGTGTGTCCAAGCCGTGTAACTCACTG-TCTAGATTTTTG-GGTCACACAGGCTAGGG
1 ACACGGGCGTGTGTCCAAGCCGTGTAACTCACTGTTCTAGA-ATTTGAGGT-ACACAAGCTAGAG
* * *
19649476 ACACGAGCGTGTGTCCAAGCCGTGCACCTCACT
1 ACACGGGCGTGTGTCCAAGCCGTGTAACTCACT
19649509 ATTTTGGATT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
62 20 0.24
63 62 0.76
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (63 bp):
ACACGGGCGTGTGTCCAAGCCGTGTAACTCACTGTTCTAGAATTTGAGGTACACAAGCTAGAG
Found at i:19649525 original size:63 final size:61
Alignment explanation
Indices: 19649358--19649539 Score: 170
Period size: 63 Copynumber: 2.9 Consensus size: 61
19649348 GCCACACGGC
* * * * * *
19649358 CGTGTGT-CTAGCCATGTAACTCACTGTTTTGGAATTTGAGGT-ACACAAGCTAGAGACACGGG
1 CGTGTGTCCAAGCCGTGCAACTCACT-TTTTGG-ATTTG-GGTCACACAGGCTAGGGACACGAG
* * * *
19649420 CGTGTGTCCAAGCCGTGTAACTCACTGTCTAGATTTTTGGGTCACACAGGCTAGGGACACGAG
1 CGTGTGTCCAAGCCGTGCAACTCACTTTTTGGA--TTTGGGTCACACAGGCTAGGGACACGAG
* * *
19649483 CGTGTGTCCAAGCCGTGCACCTCACTATTTTGGATTTAGGGTCACATAGGCCAGGGA
1 CGTGTGTCCAAGCCGTGCAACTCACT-TTTTGGATTT-GGGTCACACAGGCTAGGGA
19649540 GACGGGTGTG
Statistics
Matches: 99, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
61 1 0.01
62 16 0.16
63 78 0.79
64 4 0.04
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (61 bp):
CGTGTGTCCAAGCCGTGCAACTCACTTTTTGGATTTGGGTCACACAGGCTAGGGACACGAG
Found at i:19650752 original size:10 final size:10
Alignment explanation
Indices: 19650739--19650772 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
19650729 CTTTTAATAA
19650739 ATTTTTTTAT
1 ATTTTTTTAT
19650749 ATTTTTTTA-
1 ATTTTTTTAT
*
19650758 ATTTTTTAAT
1 ATTTTTTTAT
19650768 ATTTT
1 ATTTT
19650773 CCAAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTTTTTAT
Found at i:19650820 original size:19 final size:19
Alignment explanation
Indices: 19650722--19650821 Score: 57
Period size: 19 Copynumber: 5.3 Consensus size: 19
19650712 TTTATTAGGC
19650722 TTTTATACTTTTA-ATAAATTT
1 TTTTATA-TTTTATATAAA--T
* *
19650743 TTTTATATTTT-TTTAATT
1 TTTTATATTTTATATAAAT
**
19650761 TTTTAATATTTTCCA-AAAT
1 TTTT-ATATTTTATATAAAT
* **
19650780 TTTAATA-AATAT-TAAAT
1 TTTTATATTTTATATAAAT
19650797 ATTTTATATTTTATATAAAT
1 -TTTTATATTTTATATAAAT
19650817 TTTTA
1 TTTTA
19650822 ATAATTTTTA
Statistics
Matches: 59, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
17 5 0.08
18 14 0.24
19 21 0.36
20 12 0.20
21 7 0.12
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTATATTTTATATAAAT
Found at i:19650833 original size:20 final size:20
Alignment explanation
Indices: 19650730--19650833 Score: 53
Period size: 20 Copynumber: 5.4 Consensus size: 20
19650720 GCTTTTATAC
* *
19650730 TTTTAATAAATTTTT-TTATA
1 TTTTTATAAATTTTTAATA-A
* *
19650750 TTTTTTTAATTTTTTAAT-A
1 TTTTTATAAATTTTTAATAA
*
19650769 TTTTCCA-AAA-TTTTAATAA
1 TTTT-TATAAATTTTTAATAA
* *
19650788 -ATAT-TAAATATTTT-AT-A
1 TTTTTATAAAT-TTTTAATAA
19650805 TTTTATATAAATTTTTAATAA
1 TTTT-TATAAATTTTTAATAA
19650826 TTTTTATA
1 TTTTTATA
19650834 TTTTCTCCCT
Statistics
Matches: 61, Mismatches: 12, Indels: 22
0.64 0.13 0.23
Matches are distributed among these distances:
17 4 0.07
18 11 0.18
19 17 0.28
20 23 0.38
21 6 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTATAAATTTTTAATAA
Found at i:19650978 original size:18 final size:20
Alignment explanation
Indices: 19650957--19650998 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
19650947 TTATAATTTT
19650957 TATAAAT-TAA-AAAAATTC
1 TATAAATCTAATAAAAATTC
**
19650975 TATATTTCTAATAAAAATTC
1 TATAAATCTAATAAAAATTC
19650995 TATA
1 TATA
19650999 TATTTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 3 0.15
20 12 0.60
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
TATAAATCTAATAAAAATTC
Found at i:19652827 original size:30 final size:30
Alignment explanation
Indices: 19652781--19652904 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
19652771 TTTTATTATG
*
19652781 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
19652812 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
19652842 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
19652872 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
19652902 CCA
1 CCA
19652905 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:19652836 original size:15 final size:15
Alignment explanation
Indices: 19652791--19652898 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
19652781 CCAATATCTC
19652791 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
19652806 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
19652821 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
19652836 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
19652851 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
19652866 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
19652881 GATACCCATATCTTT
1 GATACCCATATCTTT
19652896 GAT
1 GAT
19652899 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:19656983 original size:18 final size:18
Alignment explanation
Indices: 19656960--19657013 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
19656950 CCCAACTACT
*
19656960 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
19656978 GTATACATGAATAGTGCC
1 GTATACGTGAATAGTACC
19656996 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
19657014 ATAAACGGTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:19657561 original size:30 final size:30
Alignment explanation
Indices: 19657515--19657608 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
19657505 TTTTATTATG
*
19657515 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
19657546 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
** * *
19657576 TTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
19657606 CCA
1 CCA
19657609 TAAATATGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 49 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:19657570 original size:15 final size:15
Alignment explanation
Indices: 19657525--19657602 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
19657515 CCAATATCTC
19657525 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
19657540 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
19657555 GATACCCATATCTTT
1 GATACCCATATCTTT
**** *
19657570 GACTTTTTAT-TATTT
1 GA-TACCCATATCTTT
19657585 GATACCCATATCTTT
1 GATACCCATATCTTT
19657600 GAT
1 GAT
19657603 TTTCCATAAA
Statistics
Matches: 43, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
14 7 0.16
15 29 0.67
16 7 0.16
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.46
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:19660175 original size:41 final size:41
Alignment explanation
Indices: 19660073--19660178 Score: 185
Period size: 41 Copynumber: 2.6 Consensus size: 41
19660063 ACTGGCAATT
* * *
19660073 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
19660114 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
19660155 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
19660179 TTATCTCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:19674450 original size:102 final size:103
Alignment explanation
Indices: 19674250--19674456 Score: 353
Period size: 102 Copynumber: 2.0 Consensus size: 103
19674240 TTAAAACGAT
* * * *
19674250 TGAATCGCAAGGTGATCCGATCACACCTAAAAAATATTGGTGGCGACTCTTTTTTTTTTCATTTT
1 TGAATCGCAAGGTGATCCGATCACACCTAAAAAATATCGGTGGCAACTCTCTGTTTTTTCATTTT
* *
19674315 CGTTTTTCAAAATCCAAGTCGATCCTTTTATTTAAAAA
66 CGATTTTCAAAATCCAAATCGATCCTTTTATTTAAAAA
19674353 TGAATCGCAAGGTGATCCGATCACACCTAAAAAATATCGGTGGCAACTC-CTGTTTTTTCATTTT
1 TGAATCGCAAGGTGATCCGATCACACCTAAAAAATATCGGTGGCAACTCTCTGTTTTTTCATTTT
19674417 CGATTTTCAAAATCCAAATCGATCCTTTTATTTAAAAA
66 CGATTTTCAAAATCCAAATCGATCCTTTTATTTAAAAA
19674455 TG
1 TG
19674457 GTTTTGAAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
102 51 0.52
103 47 0.48
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (103 bp):
TGAATCGCAAGGTGATCCGATCACACCTAAAAAATATCGGTGGCAACTCTCTGTTTTTTCATTTT
CGATTTTCAAAATCCAAATCGATCCTTTTATTTAAAAA
Found at i:19676250 original size:25 final size:23
Alignment explanation
Indices: 19676214--19676281 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
19676204 GCATTTGGAG
*
19676214 GGTATACTTGGTTGTGTTCGAAA
1 GGTATATTTGGTTGTGTTCGAAA
* * *
19676237 GTTATATATATGGTTGTGTTTGAAG
1 GGTATAT-T-TGGTTGTGTTCGAAA
*
19676262 GGTATATTTGGTTGTATTCG
1 GGTATATTTGGTTGTGTTCG
19676282 GAGGGTACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 15 0.42
24 2 0.06
25 19 0.53
ACGTcount: A:0.21, C:0.04, G:0.29, T:0.46
Consensus pattern (23 bp):
GGTATATTTGGTTGTGTTCGAAA
Found at i:19676286 original size:23 final size:23
Alignment explanation
Indices: 19676188--19676288 Score: 78
Period size: 23 Copynumber: 4.3 Consensus size: 23
19676178 TGGATATGTT
* * *
19676188 GAAGGGTATA-TTAGTTGCATTT
1 GAAGGGTATATTTGGTTGTATTC
* * *
19676210 GGAGGGTATACTTGGTTGTGTTC
1 GAAGGGTATATTTGGTTGTATTC
* * * *
19676233 GAAAGTTATATATATGGTTGTGTTT
1 GAAGGGTATAT-T-TGGTTGTATTC
19676258 GAAGGGTATATTTGGTTGTATTC
1 GAAGGGTATATTTGGTTGTATTC
*
19676281 GGAGGGTA
1 GAAGGGTA
19676289 CATGGTTGTG
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
22 9 0.15
23 31 0.51
24 2 0.03
25 19 0.31
ACGTcount: A:0.23, C:0.04, G:0.33, T:0.41
Consensus pattern (23 bp):
GAAGGGTATATTTGGTTGTATTC
Found at i:19676306 original size:21 final size:20
Alignment explanation
Indices: 19676246--19676321 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 20
19676236 AGTTATATAT
19676246 ATGGTTGTGTTTGAAGGGTATA
1 ATGGTTGTGTTTG-AGGGTA-A
* * * *
19676268 TTTGGTTGTATTCGGAGGGTAC
1 -ATGGTTGTGTT-TGAGGGTAA
19676290 ATGGTTGTGTTTAGAGGGTAA
1 ATGGTTGTGTTT-GAGGGTAA
19676311 ATCGGTTGTGT
1 AT-GGTTGTGT
19676322 CTGGAACCTA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
21 18 0.43
22 8 0.19
23 15 0.36
24 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.37, T:0.41
Consensus pattern (20 bp):
ATGGTTGTGTTTGAGGGTAA
Found at i:19681232 original size:9 final size:9
Alignment explanation
Indices: 19681200--19681224 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19681190 AAAAATTAAC
19681200 CGAATTACT
1 CGAATTACT
19681209 CGAATTACT
1 CGAATTACT
19681218 CGAATTA
1 CGAATTA
19681225 ACCGAATTGA
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:0.20, G:0.12, T:0.32
Consensus pattern (9 bp):
CGAATTACT
Found at i:19683005 original size:30 final size:31
Alignment explanation
Indices: 19682969--19683037 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
19682959 GGTTTCATTT
* *
19682969 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
19682999 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTAACAAAA
*
19683030 CAATCACT
1 CAGTCACT
19683038 GATTAATAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.48
31 14 0.42
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:19694306 original size:20 final size:20
Alignment explanation
Indices: 19694283--19694349 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
19694273 TTTCTATTCG
*
19694283 TATAAACTGTAATTCATTCA
1 TATAAACTGTAATTCATCCA
* * * *
19694303 TATAACCAGTAGTTCATCCG
1 TATAAACTGTAATTCATCCA
*
19694323 TATAAA-TAATAATTCATCCA
1 TATAAACT-GTAATTCATCCA
19694343 TATAAAC
1 TATAAAC
19694350 ACATATCTTA
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (20 bp):
TATAAACTGTAATTCATCCA
Found at i:19694605 original size:23 final size:23
Alignment explanation
Indices: 19694508--19694635 Score: 62
Period size: 23 Copynumber: 5.5 Consensus size: 23
19694498 AAACTCCTCC
* * *
19694508 TGAGCTGATAAATAGTAGGCTCTAT
1 TGAGCT-A-AAATGGTAAGCTCTAA
* * * *
19694533 TGAGCTGAAACGGTAAGCTTTGA
1 TGAGCTAAAATGGTAAGCTCTAA
* * *
19694556 TGAGCT-GAATAGTAAGCAC-ATA
1 TGAGCTAAAATGGTAAGCTCTA-A
*
19694578 CGAGCTAAAATGGTAAGCTCTAA
1 TGAGCTAAAATGGTAAGCTCTAA
* * * *
19694601 TGAGCTGAAAACGATAGGCTCTTA
1 TGAGCT-AAAATGGTAAGCTCTAA
*
19694625 CGAGCTAAAAT
1 TGAGCTAAAAT
19694636 ATCGGTAAGC
Statistics
Matches: 75, Mismatches: 24, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
22 14 0.19
23 36 0.48
24 19 0.25
25 6 0.08
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (23 bp):
TGAGCTAAAATGGTAAGCTCTAA
Found at i:19694629 original size:24 final size:23
Alignment explanation
Indices: 19694576--19694634 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
19694566 AGTAAGCACA
* *
19694576 TACGAGCTAAAATGGTAAGCTCT
1 TACGAGCTAAAACGATAAGCTCT
* * *
19694599 AATGAGCTGAAAACGATAGGCTCT
1 TACGAGCT-AAAACGATAAGCTCT
19694623 TACGAGCTAAAA
1 TACGAGCTAAAA
19694635 TATCGGTAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (23 bp):
TACGAGCTAAAACGATAAGCTCT
Found at i:19695023 original size:124 final size:128
Alignment explanation
Indices: 19694803--19695115 Score: 445
Period size: 124 Copynumber: 2.4 Consensus size: 128
19694793 AATAATTCAA
* * * *
19694803 TTTCTCAAATCACATATATATAATCTATTCAATTAAGTACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCACAT
*
19694868 ACATTCTCAAATCACATATATATAATCG-ATT-TA-A-ACATTTAAATACTCAATTCGCATAC
66 ACATTCTCAAATCACATACATATAATCGTATTATACATACATTTAAATACTCAATTCGCATAC
* * * *
19694927 TTTCTCAAATCATATACATATAATCAATTCCATTAAATACATACATTTAATTATTCAATTCACAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCACAT
* *
19694992 ACTTTCTCAAATCACATACATATAATCGATTTAATTAAATACATACATTTAATTACTCAATTCGC
66 ACATTCTCAAATCACATACATATAATCG---T-ATT--ATACATACATTTAAATACTCAATTCGC
19695057 ATAC
125 ATAC
19695061 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACT
19695116 ATTGCAATTT
Statistics
Matches: 164, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
124 83 0.51
129 3 0.02
132 2 0.01
133 1 0.01
134 75 0.46
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (128 bp):
TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCACAT
ACATTCTCAAATCACATACATATAATCGTATTATACATACATTTAAATACTCAATTCGCATAC
Found at i:19697034 original size:18 final size:17
Alignment explanation
Indices: 19697008--19697046 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
19696998 ATTTTCCTTC
19697008 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
19697025 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
19697043 CACA
1 CACA
19697047 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:19699859 original size:4 final size:4
Alignment explanation
Indices: 19699850--19699881 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
19699840 AGTAAAAGAT
19699850 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
19699882 TATCATGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:19700776 original size:6 final size:6
Alignment explanation
Indices: 19700759--19700797 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
19700749 ATGTGAGGTA
* * *
19700759 AGTATT AATATT AGTATT AGTATT ATTATT ATTATT AGT
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGT
19700798 GGGAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (6 bp):
AGTATT
Found at i:19712307 original size:26 final size:26
Alignment explanation
Indices: 19712278--19712474 Score: 133
Period size: 26 Copynumber: 7.3 Consensus size: 26
19712268 TTAATCATAT
*
19712278 TTTAACATAATTATTATTAAATATAA
1 TTTAATATAATTATTATTAAATATAA
* * * * *
19712304 TTTAATAAAATATATGAATTTACTAAAA
1 TTTAATATAAT-TAT-TATTAAATATAA
* * * *
19712332 TCATAATATATAGTAATATAAAATATAA
1 T-TTAATATA-ATTATTATTAAATATAA
*
19712360 TTTAAAATAATTATTATTAAATATAA
1 TTTAATATAATTATTATTAAATATAA
* * * * *
19712386 TTTAATAAAATATATGAATTTACTAAAA
1 TTTAATATAAT-TAT-TATTAAATATAA
* * * *
19712414 TCATAATATATAGTAATATAAAATATAA
1 T-TTAATATA-ATTATTATTAAATATAA
*
19712442 TTTAAAATAATTATTATTAAATATAA
1 TTTAATATAATTATTATTAAATATAA
19712468 TTTAATA
1 TTTAATA
19712475 AAAATATATA
Statistics
Matches: 122, Mismatches: 41, Indels: 16
0.68 0.23 0.09
Matches are distributed among these distances:
26 52 0.43
27 18 0.15
28 34 0.28
29 16 0.13
30 2 0.02
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (26 bp):
TTTAATATAATTATTATTAAATATAA
Found at i:19712325 original size:18 final size:17
Alignment explanation
Indices: 19712298--19712446 Score: 66
Period size: 18 Copynumber: 8.6 Consensus size: 17
19712288 TTATTATTAA
19712298 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
19712315 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
*
19712333 CATAATATATAGTAATATAAA-
1 -AT-ATA-AT-TTAATA-AAAT
19712354 ATATAA-TT--TAAAAT
1 ATATAATTTAATAAAAT
* *
19712368 A-ATTA-TT-AT-TAA-
1 ATATAATTTAATAAAAT
19712380 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
19712397 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
*
19712415 CATAATATATAGTAATATAAA-
1 -AT-ATA-AT-TTAATA-AAAT
19712436 ATATAATTTAA
1 ATATAATTTAA
19712447 AATAATTATT
Statistics
Matches: 101, Mismatches: 12, Indels: 38
0.67 0.08 0.25
Matches are distributed among these distances:
12 1 0.01
13 13 0.13
14 6 0.06
15 2 0.02
16 3 0.03
17 11 0.11
18 27 0.27
19 12 0.12
20 12 0.12
21 8 0.08
22 6 0.06
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:19712354 original size:41 final size:41
Alignment explanation
Indices: 19712308--19712440 Score: 150
Period size: 41 Copynumber: 3.2 Consensus size: 41
19712298 ATATAATTTA
19712308 ATAAAATATATGAATTTACTAAAATCATAATATATAGTAAT
1 ATAAAATATATGAATTTACTAAAATCATAATATATAGTAAT
* * * *
19712349 AT-AAA-ATAT-AATTTA-AAATAATTATTATTAAATA-TAATTT
1 ATAAAATATATGAATTTACTAA-AATCA-TAATATATAGTAA--T
19712389 AATAAAATATATGAATTTACTAAAATCATAATATATAGTAAT
1 -ATAAAATATATGAATTTACTAAAATCATAATATATAGTAAT
19712431 ATAAAATATA
1 ATAAAATATA
19712441 ATTTAAAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 20
0.73 0.08 0.20
Matches are distributed among these distances:
37 2 0.03
38 13 0.18
39 11 0.15
40 4 0.05
41 14 0.19
42 4 0.05
43 11 0.15
44 13 0.18
45 2 0.03
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (41 bp):
ATAAAATATATGAATTTACTAAAATCATAATATATAGTAAT
Found at i:19712415 original size:82 final size:82
Alignment explanation
Indices: 19712278--19712487 Score: 395
Period size: 82 Copynumber: 2.6 Consensus size: 82
19712268 TTAATCATAT
*
19712278 TTTAACATAATTATTATTAAATATAATTTAATAAAATATATGAATTTACTAAAATCATAATATAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATGAATTTACTAAAATCATAATATAT
19712343 AGTAATATAAAATATAA
66 AGTAATATAAAATATAA
19712360 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATGAATTTACTAAAATCATAATATAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATGAATTTACTAAAATCATAATATAT
19712425 AGTAATATAAAATATAA
66 AGTAATATAAAATATAA
19712442 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATAT-AATT
1 TTTAAAATAATTATTATTAAATATAATTTAAT-AAAATATATGAATT
19712488 CCCCGATACG
Statistics
Matches: 126, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
82 117 0.93
83 9 0.07
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (82 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATGAATTTACTAAAATCATAATATAT
AGTAATATAAAATATAA
Found at i:19722615 original size:19 final size:18
Alignment explanation
Indices: 19722565--19722617 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
19722555 TTGGATATAT
*
19722565 TTTTTTAAAAATTGTTAAA
1 TTTTTT-AAAATTTTTAAA
**
19722584 TTTTAAAATAATTTTTAATA
1 TTTTTTAA-AATTTTTAA-A
19722604 TTTTTTAAAATTTT
1 TTTTTTAAAATTTT
19722618 CATGAAGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 2 0.07
19 18 0.67
20 7 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTTTTAAAATTTTTAAA
Found at i:19741047 original size:17 final size:18
Alignment explanation
Indices: 19741010--19741047 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
19741000 ACCTATACTA
**
19741010 AATATATAATATTATTTT
1 AATATATAATATTATAAT
19741028 AATATA-AATATTATAAT
1 AATATATAATATTATAAT
19741045 AAT
1 AAT
19741048 GTTAAGATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATATAATATTATAAT
Found at i:19741099 original size:8 final size:8
Alignment explanation
Indices: 19741086--19741114 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
19741076 TAAATAGAAA
19741086 AAATTATT
1 AAATTATT
19741094 AAATTATT
1 AAATTATT
19741102 AAA-TATT
1 AAATTATT
19741109 AAATTA
1 AAATTA
19741115 ATATAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
AAATTATT
Found at i:19741110 original size:15 final size:16
Alignment explanation
Indices: 19741090--19741127 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
19741080 TAGAAAAAAT
*
19741090 TATTAAATTATTA-AA
1 TATTAAATTAATATAA
19741105 TATTAAATTAATATAA
1 TATTAAATTAATATAA
19741121 TA-TAAAT
1 TATTAAAT
19741128 ATTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTAAATTAATATAA
Found at i:19747635 original size:16 final size:16
Alignment explanation
Indices: 19747594--19747636 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
19747584 TCCTAATAGA
*
19747594 ATTTTCTTCATCTTTTT
1 ATTTTCTTC-CCTTTTT
*
19747611 A-TTTATTCCCTTTTT
1 ATTTTCTTCCCTTTTT
19747626 ATTTTCTTCCC
1 ATTTTCTTCCC
19747637 CTTCCTTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 7 0.32
16 14 0.64
17 1 0.05
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTCTTCCCTTTTT
Found at i:19751952 original size:105 final size:102
Alignment explanation
Indices: 19751764--19751980 Score: 389
Period size: 105 Copynumber: 2.1 Consensus size: 102
19751754 TCAGGATCTG
19751764 GTCCCTGGTTGCAATAAGGTATATAGCAATGAAAATTTTGTAAACTGTCTTGCTACCAACTCTAT
1 GTCCCTGGTTGCAATAAGGTATATAGCAATGAAAATTTTGTAAACTGTCTTGCTACCAACTCTAT
19751829 ATTTGTTTATTCAATGTTTTGTGTATAAGAAAAACTA
66 ATTTGTTTATTCAATGTTTTGTGTATAAGAAAAACTA
*
19751866 GTCCCTGGTTGCAATAAGTTATATAGCAATGAAAATTTTTGTAAACTGTGTCTTGCTACCAACTC
1 GTCCCTGGTTGCAATAAGGTATATAGCAATGAAAA-TTTTGTAAAC--TGTCTTGCTACCAACTC
*
19751931 TATGTTTGTTTATTCAATGTTTTGTGTATAAGAAAAACTA
63 TATATTTGTTTATTCAATGTTTTGTGTATAAGAAAAACTA
19751971 GTCCCTGGTT
1 GTCCCTGGTT
19751981 TGCTGTACCT
Statistics
Matches: 110, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
102 34 0.31
103 10 0.09
105 66 0.60
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (102 bp):
GTCCCTGGTTGCAATAAGGTATATAGCAATGAAAATTTTGTAAACTGTCTTGCTACCAACTCTAT
ATTTGTTTATTCAATGTTTTGTGTATAAGAAAAACTA
Found at i:19756252 original size:17 final size:19
Alignment explanation
Indices: 19756214--19756252 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
19756204 TTAAAGATTT
*
19756214 TTTTTACAATACTTTAATA
1 TTTTTACAATAATTTAATA
19756233 TTTTTA-AATAATTT-ATA
1 TTTTTACAATAATTTAATA
19756250 TTT
1 TTT
19756253 ATGTTCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTACAATAATTTAATA
Found at i:19756340 original size:21 final size:21
Alignment explanation
Indices: 19756294--19756340 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
19756284 AGTTATTTTC
*
19756294 ATTTTAAATATTTCTTTTATA
1 ATTTTAAATATTTCTTTAATA
*
19756315 CTTTTAAAATATTT-TTTAATA
1 ATTTT-AAATATTTCTTTAATA
19756336 ATTTT
1 ATTTT
19756341 TTCACATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTAAATATTTCTTTAATA
Found at i:19756650 original size:36 final size:36
Alignment explanation
Indices: 19756610--19756681 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
19756600 AATCCTTTAT
19756610 TATTTCCTTAGTTAATCTTTTGTTATGCATAGTTAG
1 TATTTCCTTAGTTAATCTTTTGTTATGCATAGTTAG
19756646 TATTTCCTTAGTTAATCTTTTGTTATGCATAGTTAG
1 TATTTCCTTAGTTAATCTTTTGTTATGCATAGTTAG
19756682 GAAATTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.11, G:0.14, T:0.53
Consensus pattern (36 bp):
TATTTCCTTAGTTAATCTTTTGTTATGCATAGTTAG
Found at i:19767897 original size:17 final size:17
Alignment explanation
Indices: 19767867--19767908 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
19767857 ACAAAATCTG
19767867 AATTTAATTCCCAATTT
1 AATTTAATTCCCAATTT
* *
19767884 AATTTTATTTCCAATTT
1 AATTTAATTCCCAATTT
19767901 -ATTTAATT
1 AATTTAATT
19767909 GTTTATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTAATTCCCAATTT
Found at i:19769514 original size:30 final size:30
Alignment explanation
Indices: 19769441--19769514 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
19769431 GAGTTGAACA
* *
19769441 GTTGTAGCAATTTGTATGTTTTATTATAGT
1 GTTGTAGCAATTTTTATGTTTTATTAAAGT
* * *
19769471 GTTGTAGTAATTTTTGTGTTTTGTTAAAG-
1 GTTGTAGCAATTTTTATGTTTTATTAAAGT
19769500 GCTTGTAGCAATTTT
1 G-TTGTAGCAATTTT
19769515 GTTGAATTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.53
Consensus pattern (30 bp):
GTTGTAGCAATTTTTATGTTTTATTAAAGT
Found at i:19776886 original size:25 final size:22
Alignment explanation
Indices: 19776832--19776886 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
19776822 TTTCGGCTAG
19776832 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
19776854 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
19776879 AGGAAGAA
1 A-GAAGAA
19776887 TTCGGCACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:19780978 original size:43 final size:43
Alignment explanation
Indices: 19780912--19781007 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
19780902 ATGGAGAAAG
* *
19780912 CGCCACTAAAGAACATAACCTTTAGCGGCGCTTTCCCCACAAA
1 CGCCGCTAAAGAACATAACCTTTAGCAGCGCTTTCCCCACAAA
* * *
19780955 CGCCGCTAAAGAACATGATCTTTAGCAGCGCTTTCCCCATAAA
1 CGCCGCTAAAGAACATAACCTTTAGCAGCGCTTTCCCCACAAA
*
19780998 CTCCGCTAAA
1 CGCCGCTAAA
19781008 AACCATATCA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (43 bp):
CGCCGCTAAAGAACATAACCTTTAGCAGCGCTTTCCCCACAAA
Found at i:19788920 original size:225 final size:224
Alignment explanation
Indices: 19788530--19788936 Score: 654
Period size: 225 Copynumber: 1.8 Consensus size: 224
19788520 TCATCATTTT
* *
19788530 TTATGCATATTTCCATTACACTAAATAGCTGCTGGGTTTGGGTGGGAAACATGAAAAAGTAAACT
1 TTATGCATATTTCCATTACACTAAATAACTGCTGGGTTTGGGTGGGAAACAGGAAAAAGTAAACT
* * *
19788595 ACTTTGCAAGCTTATCCTTGATATGTAAACAAGACTTCAACCCCAAAATACATGCAAGAGAAAGG
66 ACTTTACAAGCTCATCCTTGATATGCAAACAAGACTTCAACCCCAAAATACATGCAAGAGAAAGG
*
19788660 TGGAGGAGTCTTTACTGCCTGAGCAACACCTACCTTTTAAGAAAAGTAGAGCACAAAAATAAAGC
131 TGGAGGAGTCTTTACTGCCTGAGCAACACCTACCTTTTAAGAAAAATAGAGCACAAAAATAAAGC
19788725 CCGAAAATAAGTAATAAGTTTGTCATTCC
196 CCGAAAATAAGTAATAAGTTTGTCATTCC
* * * *
19788754 TTATGCATTTTTCCATTGCACTAAATAATTGTTGGGTTTGGGTGGGAAACAGGAAAAAGTAAACT
1 TTATGCATATTTCCATTACACTAAATAACTGCTGGGTTTGGGTGGGAAACAGGAAAAAGTAAACT
* * * * *
19788819 ATTGTTACAAGCTCATCCTTGATGTGCCAACAAGACTTCAACCCCAAAATGCATGCAAGAGAAAT
66 ACT-TTACAAGCTCATCCTTGATATGCAAACAAGACTTCAACCCCAAAATACATGCAAGAGAAAG
19788884 GTGGAGGAGTCTTTA-TCGCCTGAGCAACACCTACCTTTTAAGAAAAATAGAGC
130 GTGGAGGAGTCTTTACT-GCCTGAGCAACACCTACCTTTTAAGAAAAATAGAGC
19788937 CCGAAAACAA
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
224 62 0.37
225 104 0.63
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (224 bp):
TTATGCATATTTCCATTACACTAAATAACTGCTGGGTTTGGGTGGGAAACAGGAAAAAGTAAACT
ACTTTACAAGCTCATCCTTGATATGCAAACAAGACTTCAACCCCAAAATACATGCAAGAGAAAGG
TGGAGGAGTCTTTACTGCCTGAGCAACACCTACCTTTTAAGAAAAATAGAGCACAAAAATAAAGC
CCGAAAATAAGTAATAAGTTTGTCATTCC
Found at i:19797817 original size:12 final size:12
Alignment explanation
Indices: 19797800--19797826 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19797790 AATTAACAAA
19797800 CAGCCCAAATCC
1 CAGCCCAAATCC
19797812 CAGCCCAAATCC
1 CAGCCCAAATCC
19797824 CAG
1 CAG
19797827 ACCTAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.48, G:0.11, T:0.07
Consensus pattern (12 bp):
CAGCCCAAATCC
Found at i:19816068 original size:73 final size:73
Alignment explanation
Indices: 19815981--19816117 Score: 213
Period size: 73 Copynumber: 1.9 Consensus size: 73
19815971 ATTTTCTTAC
* * *
19815981 CAAATTAATATTTAGAAATTACTTTGTATTAGTTTACCAAATTAAACTAAAAATGTTACTAAATA
1 CAAATTAATATTTAGAAACTACTTTATATTAGTTTACCAAATTAAACTAAAAATGATACTAAATA
19816046 TTTTTAAT
66 TTTTTAAT
* *
19816054 CAAATTAA-ATTTTAGATACTACTTTATATTAGTTTACCAAATTAAACTAAAAGTGATACTAAAT
1 CAAATTAATA-TTTAGAAACTACTTTATATTAGTTTACCAAATTAAACTAAAAATGATACTAAAT
19816118 TTAATATGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 1 0.02
73 57 0.98
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (73 bp):
CAAATTAATATTTAGAAACTACTTTATATTAGTTTACCAAATTAAACTAAAAATGATACTAAATA
TTTTTAAT
Found at i:19816273 original size:31 final size:30
Alignment explanation
Indices: 19816228--19816287 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
19816218 ATTATAGTAT
19816228 TAAAATGAAAATTTTAAAAAATTGAAGGGAC
1 TAAAATGAAAATTTT-AAAAATTGAAGGGAC
* * * *
19816259 TAAAGTGAATATTTTCAAAATTTAAGGGA
1 TAAAATGAAAATTTTAAAAATTGAAGGGA
19816288 GGCGGGCCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.50, C:0.03, G:0.17, T:0.30
Consensus pattern (30 bp):
TAAAATGAAAATTTTAAAAATTGAAGGGAC
Found at i:19817645 original size:27 final size:29
Alignment explanation
Indices: 19817614--19817672 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 29
19817604 GATAAATTTT
* *
19817614 AAATTTAAGTAGTAATTAAAT-A-AAAGA
1 AAATTTAAGTAGGAAGTAAATGATAAAGA
19817641 AAATTTAAGTAGGAAGTAAATGATAAAGA
1 AAATTTAAGTAGGAAGTAAATGATAAAGA
19817670 AAA
1 AAA
19817673 AAAAAAAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 19 0.68
28 1 0.04
29 8 0.29
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.25
Consensus pattern (29 bp):
AAATTTAAGTAGGAAGTAAATGATAAAGA
Found at i:19824276 original size:30 final size:30
Alignment explanation
Indices: 19824232--19824376 Score: 150
Period size: 30 Copynumber: 4.8 Consensus size: 30
19824222 ACTTTTCTCA
*
19824232 ACTAGTCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
19824262 ACTAGCCACTCCTTTTCCACCACCAACTCT
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* * *
19824292 ACTAGCCACACCTTCTCCACCCCCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* ** *
19824322 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-TTCCACCACCAACTCC
* *
19824352 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-TTCCACCACCA
19824377 CTTGTACCTA
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
29 3 0.03
30 94 0.97
ACGTcount: A:0.26, C:0.48, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:19830382 original size:19 final size:20
Alignment explanation
Indices: 19830366--19830410 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
19830356 TTATGAAACT
*
19830366 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
19830385 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
19830405 -AATGCA
1 TAATGCA
19830411 AAAAGAGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:19833764 original size:38 final size:39
Alignment explanation
Indices: 19833718--19833839 Score: 122
Period size: 38 Copynumber: 3.1 Consensus size: 39
19833708 CGTTTGAATG
19833718 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGC-TTTT
1 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTT
* ** *
19833756 AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTT
1 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGC-TTTTT
* * * * * *
19833796 AAAAACGTCGCTATATGTAC-ACCTTTAGCGGCGCTTTTT
1 AAAAACGCCACTA-AAGAACGAGCATTAGCGGCGCTTTTT
19833835 AAAAA
1 AAAAA
19833840 ATGCCGCTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
38 30 0.43
39 10 0.14
40 27 0.39
41 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (39 bp):
AAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTT
Found at i:19833808 original size:40 final size:38
Alignment explanation
Indices: 19833718--19833849 Score: 122
Period size: 40 Copynumber: 3.4 Consensus size: 38
19833708 CGTTTGAATG
*
19833718 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTT
1 AAAAACGCCGCTAAAGAACGAGCATTAGCGGCGCTTTT
** *
19833756 AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTT
1 AAAAACGCCGCTAAAGAACGAGCATTAGCGGCGC--TTTT
* * * * *
19833796 AAAAACGTCGCTATATGTAC-ACCTTTAGCGGCGCTTTTT
1 AAAAACGCCGCTA-AAGAACGAGCATTAGCGGCGC-TTTT
*
19833835 AAAAAATGCCGCTAA
1 -AAAAACGCCGCTAA
19833850 TGCCTGATCT
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
38 30 0.39
39 6 0.08
40 38 0.50
41 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (38 bp):
AAAAACGCCGCTAAAGAACGAGCATTAGCGGCGCTTTT
Found at i:19833862 original size:40 final size:37
Alignment explanation
Indices: 19833742--19833867 Score: 103
Period size: 40 Copynumber: 3.2 Consensus size: 37
19833732 AGAACGAGCA
* *
19833742 TTAGCGGCGC-TTTTAAAAACGCCGCTAAAGATTGAGT-A
1 TTAGCGGCGCTTTTTAAAAACGCCGCTAATG--TGA-TCT
* * *
19833780 TTAGCGGCGCTTTTTTAAAAACGTCGCTATATGTACACCT
1 TTAGCGGCGC-TTTTTAAAAACGCCGCTA-ATGT-GATCT
*
19833820 TTAGCGGCGCTTTTTAAAAAATGCCGCTAATGCCTGATCT
1 TTAGCGGCGCTTTTT-AAAAACGCCGCTAATG--TGATCT
19833860 TTAGCGGC
1 TTAGCGGC
19833868 ATTCAAAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
38 10 0.14
39 9 0.13
40 49 0.69
41 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (37 bp):
TTAGCGGCGCTTTTTAAAAACGCCGCTAATGTGATCT
Found at i:19834851 original size:7 final size:7
Alignment explanation
Indices: 19834810--19834947 Score: 57
Period size: 7 Copynumber: 19.3 Consensus size: 7
19834800 ACTATTATAA
19834810 GGTTTAT
1 GGTTTAT
*
19834817 GGATTAT
1 GGTTTAT
19834824 GAGTTTAT
1 G-GTTTAT
* *
19834832 GGATTAG
1 GGTTTAT
19834839 GGTTTAT
1 GGTTTAT
19834846 GGTTTAT
1 GGTTTAT
* *
19834853 GGGTTAA
1 GGTTTAT
* *
19834860 GGGTTAG
1 GGTTTAT
*
19834867 GGTTTAA
1 GGTTTAT
* *
19834874 GTTTTAAGG
1 GGTTT-A-T
*
19834883 GGTTGA-
1 GGTTTAT
19834889 GGTTTGA-
1 GGTTT-AT
19834896 GGTTTAAT
1 GGTTT-AT
*
19834904 GG-TTAA
1 GGTTTAT
* *
19834910 GGATTAAG
1 GG-TTTAT
19834918 GGTTTAT
1 GGTTTAT
*
19834925 GTTTTAT
1 GGTTTAT
*
19834932 GGTTTAA
1 GGTTTAT
19834939 GGTTTAT
1 GGTTTAT
19834946 GG
1 GG
19834948 GTTAGGGGTT
Statistics
Matches: 98, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
6 7 0.07
7 74 0.76
8 14 0.14
9 3 0.03
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (7 bp):
GGTTTAT
Found at i:19834851 original size:21 final size:21
Alignment explanation
Indices: 19834820--19834872 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
19834810 GGTTTATGGA
19834820 TTATGAGTTTATGGATT-AGGG
1 TTATG-GTTTATGGATTAAGGG
*
19834841 TTTATGGTTTATGGGTTAAGGG
1 -TTATGGTTTATGGATTAAGGG
*
19834863 TTAGGGTTTA
1 TTATGGTTTA
19834873 AGTTTTAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (21 bp):
TTATGGTTTATGGATTAAGGG
Found at i:19834856 original size:15 final size:15
Alignment explanation
Indices: 19834810--19834857 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
19834800 ACTATTATAA
19834810 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
19834825 AGTTTATGGATTA-G
1 GGTTTATGGATTATG
*
19834839 GGTTTATGGTTTATG
1 GGTTTATGGATTATG
19834854 GGTT
1 GGTT
19834858 AAGGGTTAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:19834892 original size:28 final size:28
Alignment explanation
Indices: 19834840--19834969 Score: 66
Period size: 29 Copynumber: 4.5 Consensus size: 28
19834830 ATGGATTAGG
* *
19834840 GTTTATGGTTTATGGGTTAAGGGTTAGG
1 GTTTAAGGTTTAGGGGTTAAGGGTTAGG
* * *
19834868 GTTTAAGTTTTAAGGGGTTGA-GGTTTGAG
1 GTTTAAGGTTT-AGGGGTTAAGGGTTAG-G
* * *
19834897 GTTTAATGG-TTAAGGATTAAGGGTTTATG
1 GTTTAA-GGTTTAGGGGTTAAGGG-TTAGG
* * * * *
19834926 TTTTATGGTTTAAGGTTTATGGGTTAGG
1 GTTTAAGGTTTAGGGGTTAAGGGTTAGG
* *
19834954 GGTTAGGGATTTAGGG
1 GTTTAAGG-TTTAGGG
19834970 TTTAGATTAA
Statistics
Matches: 75, Mismatches: 20, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
28 31 0.41
29 41 0.55
30 3 0.04
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (28 bp):
GTTTAAGGTTTAGGGGTTAAGGGTTAGG
Found at i:19834893 original size:50 final size:49
Alignment explanation
Indices: 19834839--19834973 Score: 132
Period size: 50 Copynumber: 2.7 Consensus size: 49
19834829 TATGGATTAG
*
19834839 GGTTTATGGTTTATGGGTTAAGGGTTAGGGTTTAAGTTTTAAGGGGTTGA
1 GGTTTATGGTTTATGGGTTAAGGGTTAGGGTTTAAGTTTT-AGGGGTTAA
* * * *
19834889 GGTTTGA-GGTTTAAT-GGTTAAGGATTAAGGGTTTATGTTTTATGGTTTAA
1 GGTTT-ATGGTTT-ATGGGTTAAGGGTT-AGGGTTTAAGTTTTAGGGGTTAA
* *
19834939 GGTTTATGGGTTAGGGGTT-AGGGATTTAGGGTTTA
1 GGTTTATGGTTTATGGGTTAAGGG--TTAGGGTTTA
19834974 GATTAATTAG
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
49 5 0.07
50 47 0.67
51 18 0.26
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (49 bp):
GGTTTATGGTTTATGGGTTAAGGGTTAGGGTTTAAGTTTTAGGGGTTAA
Found at i:19834921 original size:29 final size:29
Alignment explanation
Indices: 19834839--19834950 Score: 81
Period size: 29 Copynumber: 3.9 Consensus size: 29
19834829 TATGGATTAG
* *
19834839 GGTTT-ATGGTTTATGGGTTAAGGG-TTA
1 GGTTTAATGGTTTAAGGATTAAGGGTTTA
* * *
19834866 GGGTTTAA-GTTTTAAGGGGTTGA-GGTTTGA
1 -GGTTTAATGGTTTAA-GGATTAAGGGTTT-A
19834896 GGTTTAATGG-TTAAGGATTAAGGGTTTA
1 GGTTTAATGGTTTAAGGATTAAGGGTTTA
* * * *
19834924 TGTTTTATGGTTTAAGGTTTATGGGTT
1 GGTTTAATGGTTTAAGGATTAAGGGTT
19834951 AGGGGTTAGG
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
28 26 0.39
29 39 0.58
30 2 0.03
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.45
Consensus pattern (29 bp):
GGTTTAATGGTTTAAGGATTAAGGGTTTA
Found at i:19834935 original size:14 final size:14
Alignment explanation
Indices: 19834807--19834947 Score: 70
Period size: 14 Copynumber: 9.9 Consensus size: 14
19834797 GTTACTATTA
*
19834807 TAAGGTTTATGGAT
1 TAAGGTTTATGGTT
* *
19834821 TATGAGTTTATGGAT
1 TAAG-GTTTATGGTT
*
19834836 TAGGGTTTATGGTT
1 TAAGGTTTATGGTT
* * * *
19834850 TATGGGTTAAGGGT
1 TAAGGTTTATGGTT
* * *
19834864 TAGGGTTTAAGTTT
1 TAAGGTTTATGGTT
*
19834878 TAAGGGGTTGA-GGTT
1 TAA--GGTTTATGGTT
*
19834893 TGAGGTTTAATGG-T
1 TAAGGTTT-ATGGTT
* *
19834907 TAAGGATTAAGGGTT
1 TAAGG-TTTATGGTT
* *
19834922 TATGTTTTATGGTT
1 TAAGGTTTATGGTT
19834936 TAAGGTTTATGG
1 TAAGGTTTATGG
19834948 GTTAGGGGTT
Statistics
Matches: 95, Mismatches: 25, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
13 4 0.04
14 60 0.63
15 26 0.27
16 5 0.05
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
TAAGGTTTATGGTT
Found at i:19834973 original size:7 final size:7
Alignment explanation
Indices: 19834835--19834974 Score: 63
Period size: 7 Copynumber: 19.6 Consensus size: 7
19834825 AGTTTATGGA
19834835 TTAGGGT
1 TTAGGGT
*
19834842 TTATGGT
1 TTAGGGT
19834849 TTATGGGT
1 TTA-GGGT
*
19834857 TAAGGG-
1 TTAGGGT
19834863 TTAGGGT
1 TTAGGGT
* *
19834870 TTAAGTT
1 TTAGGGT
*
19834877 TTAAGGGG
1 TT-AGGGT
19834885 TT-GAGGT
1 TTAG-GGT
19834892 TT-GAGGT
1 TTAG-GGT
*
19834899 TTAATGGT
1 TT-AGGGT
* *
19834907 TAAGGAT
1 TTAGGGT
*
19834914 TAAGGGT
1 TTAGGGT
* *
19834921 TTATGTT
1 TTAGGGT
*
19834928 TTATGGT
1 TTAGGGT
*
19834935 TTAAGGT
1 TTAGGGT
19834942 TTATGGG-
1 TTA-GGGT
*
19834949 TTAGGGG
1 TTAGGGT
19834956 TTAGGGAT
1 TTAGGG-T
19834964 TTAGGGT
1 TTAGGGT
19834971 TTAG
1 TTAG
19834975 ATTAATTAGT
Statistics
Matches: 102, Mismatches: 22, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
6 9 0.09
7 72 0.71
8 21 0.21
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:19835298 original size:53 final size:53
Alignment explanation
Indices: 19835234--19835338 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 53
19835224 TATTAGATTT
*
19835234 AAAAAAAATTGATAAATAAATGAA-AAAAGTAACAGATCAGTGATATGGATAA
1 AAAAAAAATTGATAAATAAATAAATAAAAGTAACAGATCAGTGATATGGATAA
*
19835286 AAAAAAACATTGATAAATAAATAAATAAAAGTAACAGATCATTGATATGGATA
1 AAAAAAA-ATTGATAAATAAATAAATAAAAGTAACAGATCAGTGATATGGATA
19835339 GGTAACTATC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 7 0.14
53 16 0.33
54 26 0.53
ACGTcount: A:0.59, C:0.05, G:0.13, T:0.23
Consensus pattern (53 bp):
AAAAAAAATTGATAAATAAATAAATAAAAGTAACAGATCAGTGATATGGATAA
Found at i:19837800 original size:42 final size:42
Alignment explanation
Indices: 19837740--19837822 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
19837730 GCTTTGTCCT
* ** * * *
19837740 GCCCATTCTTCAGTCAAGTTTCCAAGTGAGAAGTCTAGAAAG
1 GCCCATTCTGCAACCAAGTTCCCAAATGAGAAGCCTAGAAAG
19837782 GCCCATTCTGCAACCAAGTTCCCAAATGAGAAGCCTAGAAA
1 GCCCATTCTGCAACCAAGTTCCCAAATGAGAAGCCTAGAAA
19837823 CTGTCTATCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (42 bp):
GCCCATTCTGCAACCAAGTTCCCAAATGAGAAGCCTAGAAAG
Found at i:19844463 original size:79 final size:82
Alignment explanation
Indices: 19844352--19844536 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
19844342 GCTACTCGTT
* * *
19844352 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
19844415 GGATTTAGTAAC-TCGCA
65 AGATATAGTAACTTAGCA
* **
19844432 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCA
* *
19844495 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
19844512 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19844537 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCA
GATATAGTAACTTAGCA
Found at i:19844469 original size:39 final size:40
Alignment explanation
Indices: 19844352--19844536 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
19844342 GCTACTCGTT
* *
19844352 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
19844392 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
19844432 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
19844471 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
19844512 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19844537 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 76 0.61
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19855966 original size:309 final size:309
Alignment explanation
Indices: 19855407--19856024 Score: 1155
Period size: 309 Copynumber: 2.0 Consensus size: 309
19855397 AAAAATATTT
*
19855407 TAGCTTTTATCTCTCAGTTCTCTCCTTTCTCACGTAGCCTTTGTTATTTCTTAGTTTGTCTTCCT
1 TAGCTTTTATCTCTCAATTCTCTCCTTTCTCACGTAGCCTTTGTTATTTCTTAGTTTGTCTTCCT
*
19855472 TCAATTTATTAGTTCCAGTAACCAATCATCCATTTCACCTTTATTTTCAACTTTTCACAAATTTA
66 TCAATTTATTAGTTCCAGTAACCAACCATCCATTTCACCTTTATTTTCAACTTTTCACAAATTTA
19855537 TTTATTGTTTTTAGTTTCTTTAACTTTCAATTCCCAAAACTTCCAACTTGTTACAATTTATCATT
131 TTTATTGTTTTTAGTTTCTTTAACTTTCAATTCCCAAAACTTCCAACTTGTTACAATTTATCATT
* **
19855602 TACAACTCATTTTTCAAAATCCCTTTTCAAACCACCCCACTTTAATATATTCCAACCTTCATACT
196 TACAACTCATTTTTCAAAATCCATTTTCAAACCACCCCACTTTAATATATTCCAACCCCCATACT
19855667 CAATCACATCACCTATCTTTTCACCCTCTCTACCTTATTAAATTTATCA
261 CAATCACATCACCTATCTTTTCACCCTCTCTACCTTATTAAATTTATCA
19855716 TAGCTTTTATCTCTCAATTCTCTCCTTTCTCACGTAGCCTTTGTTATTTCTTAGTTTGTCTTCCT
1 TAGCTTTTATCTCTCAATTCTCTCCTTTCTCACGTAGCCTTTGTTATTTCTTAGTTTGTCTTCCT
19855781 TCAATTTATTAGTTCCAGTAACCAACCATCCATTTCACCTTTATTTTCAACTTTTCACAAATTTA
66 TCAATTTATTAGTTCCAGTAACCAACCATCCATTTCACCTTTATTTTCAACTTTTCACAAATTTA
* *
19855846 TTTATTGTTTTTAGTTTCTTTAACTTTCAATTCCCAAAACTTCCAGCTTGTTACTATTTATCATT
131 TTTATTGTTTTTAGTTTCTTTAACTTTCAATTCCCAAAACTTCCAACTTGTTACAATTTATCATT
* *
19855911 TACAACTCCTTTTTCAAAATCTATTTTCAAACCACCCCACTTTAATATATTCCAACCCCCATACT
196 TACAACTCATTTTTCAAAATCCATTTTCAAACCACCCCACTTTAATATATTCCAACCCCCATACT
19855976 CAATCACATCACCTATCTTTTCACCCTCTCTACCTTATTAAATTTATCA
261 CAATCACATCACCTATCTTTTCACCCTCTCTACCTTATTAAATTTATCA
19856025 AATACCAACA
Statistics
Matches: 300, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
309 300 1.00
ACGTcount: A:0.25, C:0.27, G:0.04, T:0.44
Consensus pattern (309 bp):
TAGCTTTTATCTCTCAATTCTCTCCTTTCTCACGTAGCCTTTGTTATTTCTTAGTTTGTCTTCCT
TCAATTTATTAGTTCCAGTAACCAACCATCCATTTCACCTTTATTTTCAACTTTTCACAAATTTA
TTTATTGTTTTTAGTTTCTTTAACTTTCAATTCCCAAAACTTCCAACTTGTTACAATTTATCATT
TACAACTCATTTTTCAAAATCCATTTTCAAACCACCCCACTTTAATATATTCCAACCCCCATACT
CAATCACATCACCTATCTTTTCACCCTCTCTACCTTATTAAATTTATCA
Found at i:19862382 original size:17 final size:19
Alignment explanation
Indices: 19862345--19862382 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
19862335 TAGGTGCAAA
19862345 TCAATTATTAATTCTAGTCT
1 TCAATTATT-ATTCTAGTCT
19862365 TCAATTATT-TTCTA-TCT
1 TCAATTATTATTCTAGTCT
19862382 T
1 T
19862383 AAAACTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
20 9 0.50
ACGTcount: A:0.26, C:0.16, G:0.03, T:0.55
Consensus pattern (19 bp):
TCAATTATTATTCTAGTCT
Found at i:19863391 original size:26 final size:24
Alignment explanation
Indices: 19863339--19863386 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
19863329 AAGATTAGTT
19863339 GGATAGTAACTCCTCTTATATATA
1 GGATAGTAACTCCTCTTATATATA
*
19863363 GGATCGTAACTCCTCTTATATATA
1 GGATAGTAACTCCTCTTATATATA
19863387 TAGGAGGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (24 bp):
GGATAGTAACTCCTCTTATATATA
Found at i:19870220 original size:34 final size:34
Alignment explanation
Indices: 19870182--19870249 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
19870172 TAATCTTTTC
*
19870182 CTTGTTGTTTGGTATTTGCATGTCTTCTAGTTTA
1 CTTGTTCTTTGGTATTTGCATGTCTTCTAGTTTA
19870216 CTTGTTCTTTGGTATTTGCATGTCTTCTAGTTTA
1 CTTGTTCTTTGGTATTTGCATGTCTTCTAGTTTA
19870250 ATTACAATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.12, C:0.13, G:0.19, T:0.56
Consensus pattern (34 bp):
CTTGTTCTTTGGTATTTGCATGTCTTCTAGTTTA
Found at i:19873700 original size:25 final size:26
Alignment explanation
Indices: 19873666--19873724 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
19873656 AAAAAATAAT
19873666 TAAAATATTAT-ATTTTTTTATTTAC
1 TAAAATATTATAATTTTTTTATTTAC
*
19873691 TAAAATATTATAATTTTTTTATTTAT
1 TAAAATATTATAATTTTTTTATTTAC
19873717 TAAAATAT
1 TAAAATAT
19873725 ACTAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
TAAAATATTATAATTTTTTTATTTAC
Found at i:19873809 original size:27 final size:27
Alignment explanation
Indices: 19873779--19873830 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
19873769 GGTCAATCAC
*
19873779 ATTGGCGGTACCAAAGGTGACAAAGAG
1 ATTGGCGGCACCAAAGGTGACAAAGAG
* *
19873806 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAAAGGTGACAAAG
19873831 GACTAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.33, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGACAAAGAG
Found at i:19874404 original size:19 final size:19
Alignment explanation
Indices: 19874380--19874438 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
19874370 TCTAATTAAG
19874380 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* ***
19874399 TAATAA-ACTATTCCCATT
1 TAATAACTCTATTTTAATT
*
19874417 TAATAACTCTATTTTAAAT
1 TAATAACTCTATTTTAATT
19874436 TAA
1 TAA
19874439 AATAATACAT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:19874808 original size:27 final size:27
Alignment explanation
Indices: 19874767--19874818 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
19874757 CATTTTAGTC
*
19874767 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCACCAATCT
*
19874794 CTTTGGCACCTTTGGTGCCACCAAT
1 CTTTGGCACCATTGGTGCCACCAAT
19874819 GTGATTGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCACCAATCT
Found at i:19874826 original size:27 final size:27
Alignment explanation
Indices: 19874769--19874827 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
19874759 TTTTAGTCCT
* *
19874769 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCACCAATCTCA
* * *
19874796 TTGGCACCTTTGGTGCCACCAATGTGA
1 TTGGCACCATTGGTGCCACCAATCTCA
19874823 TTGGC
1 TTGGC
19874828 CTGATCAGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCACCAATCTCA
Found at i:19874900 original size:27 final size:27
Alignment explanation
Indices: 19874870--19874931 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
19874860 TTTTTTTTGT
19874870 ATATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
19874897 ATATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
*
19874924 AGATTTTG
1 ATATTTTG
19874932 ATTATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAATTATA
Found at i:19875073 original size:15 final size:14
Alignment explanation
Indices: 19875032--19875061 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19875022 GGTTACCAAA
19875032 ATGTCAACCATTAG
1 ATGTCAACCATTAG
19875046 ATGTCAACCATTAG
1 ATGTCAACCATTAG
19875060 AT
1 AT
19875062 TTGAATCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (14 bp):
ATGTCAACCATTAG
Done.