Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 128 of 204
Found at i:39648265 original size:2 final size:2
Alignment explanation
Indices: 39648250--39648290 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
39648240 ATGATGTTAT
39648250 TA TA -A TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39648290 T
1 T
39648291 CCAATGTGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:39651195 original size:18 final size:19
Alignment explanation
Indices: 39651169--39651209 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
39651159 CGTTTGTTTC
39651169 CAAAACATTATTCA-TTTA
1 CAAAACATTATTCACTTTA
*
39651187 CAAATCATTATTCACTTTA
1 CAAAACATTATTCACTTTA
39651206 -AAAA
1 CAAAA
39651210 AGTTTTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (19 bp):
CAAAACATTATTCACTTTA
Found at i:39655157 original size:25 final size:26
Alignment explanation
Indices: 39655129--39655192 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
39655119 AGAGGGTCCT
* * *
39655129 ATTATCTAGCTCTTATGAGCTTCCC-
1 ATTATATAGCTCTCACGAGCTTCCCG
*
39655154 ATTATATTGCTCTCACGAGCTTCCCG
1 ATTATATAGCTCTCACGAGCTTCCCG
*
39655180 ATTA-ATGGCTCTC
1 ATTATATAGCTCTC
39655193 TTAAGTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 29 0.88
26 4 0.12
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.38
Consensus pattern (26 bp):
ATTATATAGCTCTCACGAGCTTCCCG
Found at i:39658190 original size:49 final size:49
Alignment explanation
Indices: 39658125--39658648 Score: 874
Period size: 47 Copynumber: 10.9 Consensus size: 49
39658115 TAGTATGGCG
*
39658125 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
39658174 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
39658223 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
39658272 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
39658319 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
39658368 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
39658415 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
39658464 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
39658511 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
39658558 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
39658605 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
39658649 TCCCGAAGGG
Statistics
Matches: 455, Mismatches: 14, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
47 236 0.52
48 1 0.00
49 218 0.48
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:39658331 original size:96 final size:96
Alignment explanation
Indices: 39658125--39658648 Score: 912
Period size: 96 Copynumber: 5.5 Consensus size: 96
39658115 TAGTATGGCG
* *
39658125 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
39658190 GAATGTGAAAGTGTATATATATGTGGTAAGGCC
66 GAATGTGAAAGTG--TATATATGTGATAAGGCC
39658223 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
39658288 GAATGTGAAAGTGTATATATGTGATAAGGCC
66 GAATGTGAAAGTGTATATATGTGATAAGGCC
39658319 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
39658384 GAATGTGAAAGTGTATATATGTGATAAGGCC
66 GAATGTGAAAGTGTATATATGTGATAAGGCC
39658415 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
39658480 GAATGTGAAAGTGTATATATGTGATAAGGCC
66 GAATGTGAAAGTGTATATATGTGATAAGGCC
39658511 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
39658574 GAATGTGAAAGTGTATATATGTGACAGGGCC
66 GAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * *
39658605 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
39658649 TCCCGAAGGG
Statistics
Matches: 414, Mismatches: 10, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
94 97 0.23
95 1 0.00
96 240 0.58
98 76 0.18
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:39663810 original size:18 final size:18
Alignment explanation
Indices: 39663770--39663807 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
39663760 GTTAACGAAC
39663770 AAATATATAAATATAAAT
1 AAATATATAAATATAAAT
* *
39663788 AAATATTTATATA-AAAT
1 AAATATATAAATATAAAT
39663805 AAA
1 AAA
39663808 ATAAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATATATAAATATAAAT
Found at i:39664298 original size:20 final size:20
Alignment explanation
Indices: 39664255--39664298 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
39664245 AGGAGCAATT
*
39664255 AAATCAATTTGATTAAAATC
1 AAATCAATTTGATTAAAATA
**
39664275 AAATCAATTTGATTGGAATA
1 AAATCAATTTGATTAAAATA
39664295 AAAT
1 AAAT
39664299 AAAATCAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (20 bp):
AAATCAATTTGATTAAAATA
Found at i:39671449 original size:88 final size:86
Alignment explanation
Indices: 39671314--39671539 Score: 267
Period size: 88 Copynumber: 2.6 Consensus size: 86
39671304 CCAAAATAGA
* * * * * *
39671314 TTATTCAA-TTTAATTCTAATTTGGAAACAAAAT-TAAAATTGAATAAAATCTAATAAACAGCGA
1 TTATTTAATTTTAATACTCATTTGGAAACAAAATAAAAAATGGAATAAAATCTAATAAACAGCAA
*
39671377 GAATAAATCCTGAAATAAATT
66 GAATAAATCCTGAAACAAATT
* ** * ** * *
39671398 TTATTTAATTTTAATTTCTTGTTTGGCAACAAAATAAAAAAATGGAATAAAATCTGTTGAACGGC
1 TTATTTAATTTTAA-TACTCATTTGGAAACAAAAT-AAAAAATGGAATAAAATCTAATAAACAGC
*
39671463 AAGAATAAATCCTGAAACAGATT
64 AAGAATAAATCCTGAAACAAATT
*
39671486 TTATTTAATTTTAATACTCATTTGGAAACAAAATAAAAAATGAAATAAAATCTA
1 TTATTTAATTTTAATACTCATTTGGAAACAAAATAAAAAATGGAATAAAATCTA
39671540 TTTGAACGGA
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
84 7 0.06
85 5 0.04
86 35 0.29
87 16 0.13
88 56 0.47
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (86 bp):
TTATTTAATTTTAATACTCATTTGGAAACAAAATAAAAAATGGAATAAAATCTAATAAACAGCAA
GAATAAATCCTGAAACAAATT
Found at i:39671567 original size:87 final size:85
Alignment explanation
Indices: 39671314--39671584 Score: 303
Period size: 87 Copynumber: 3.1 Consensus size: 85
39671304 CCAAAATAGA
* * * * * *
39671314 TTATTCAA-TTTAATTCTAATTTGGAAACAAAATTAAAATTGAATAAAATCTAATAAACAGCGAG
1 TTATTCAATTTTAATTCTAATTTGGAAACAAAATAAAAAATGAATAAAATCTATTGAACGGAGAG
* *
39671378 AATAAATCCTGAAATAAATT
66 AATAAATCCTGAAACAGATT
* ** * *
39671398 TTATTTAATTTTAATTTCTTGTTTGGCAACAAAATAAAAAAATGGAATAAAATCTGTTGAACGGC
1 TTATTCAATTTTAA-TTCTAATTTGGAAACAAAAT-AAAAAAT-GAATAAAATCTATTGAACGG-
39671463 A-AGAATAAATCCTGAAACAGATT
62 AGAGAATAAATCCTGAAACAGATT
* * *
39671486 TTATTTAATTTTAATACTCATTTGGAAACAAAATAAAAAATGAAATAAAATCTATTTGAACGGAG
1 TTATTCAATTTTAATTCTAATTTGGAAACAAAATAAAAAATG-AATAAAATCTA-TTGAACGGAG
* * *
39671551 GGAATAAATCCCGAAACAGGTT
64 AGAATAAATCCTGAAACAGATT
39671573 TTATTCAATTTT
1 TTATTCAATTTT
39671585 TATTTTTATT
Statistics
Matches: 157, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
84 7 0.04
85 6 0.04
86 35 0.22
87 59 0.38
88 50 0.32
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (85 bp):
TTATTCAATTTTAATTCTAATTTGGAAACAAAATAAAAAATGAATAAAATCTATTGAACGGAGAG
AATAAATCCTGAAACAGATT
Found at i:39671764 original size:19 final size:20
Alignment explanation
Indices: 39671711--39671764 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
39671701 GTCCACGAAC
*
39671711 AAATATATAAATATAAATAAA
1 AAATATTTAAATA-AAATAAA
*
39671732 AAATATTTATATAAAATAAA
1 AAATATTTAAATAAAATAAA
39671752 ATAA-A-TTAAATAA
1 A-AATATTTAAATAA
39671765 TTTATATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 7 0.24
20 9 0.31
21 13 0.45
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATATTTAAATAAAATAAA
Found at i:39671777 original size:30 final size:26
Alignment explanation
Indices: 39671713--39671780 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 26
39671703 CCACGAACAA
39671713 ATATATAAATATAAATAAAAAATATTT
1 ATATA-AAATATAAATAAAAAATATTT
39671740 ATATAAAATA-AAATAAATTAAATAATTT
1 ATATAAAATATAAATAAA--AAAT-ATTT
39671768 ATATTTAAAATAT
1 ATA--TAAAATAT
39671781 CATATACGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
25 7 0.20
26 5 0.14
27 9 0.26
28 7 0.20
30 7 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATAAAATATAAATAAAAAATATTT
Found at i:39674050 original size:8 final size:8
Alignment explanation
Indices: 39674037--39674069 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
39674027 AAAACTAAAT
39674037 CCCGAAAA
1 CCCGAAAA
39674045 CCCGAAAA
1 CCCGAAAA
39674053 CCCGAAAA
1 CCCGAAAA
*
39674061 CGCGAAAA
1 CCCGAAAA
39674069 C
1 C
39674070 TAAGAATCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.48, C:0.36, G:0.15, T:0.00
Consensus pattern (8 bp):
CCCGAAAA
Found at i:39684611 original size:31 final size:30
Alignment explanation
Indices: 39684568--39684627 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
39684558 GATGATAATG
* * *
39684568 TTTTAATTAAAATATATATATTCTATTAACA
1 TTTTAATAAAAATATAAATA-TATATTAACA
39684599 TTTTAATAAAAATATAAATATATATTAAC
1 TTTTAATAAAAATATAAATATATATTAAC
39684628 GAAATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTTAATAAAAATATAAATATATATTAACA
Found at i:39685364 original size:30 final size:31
Alignment explanation
Indices: 39685316--39685375 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
39685306 AAATTTTTTA
* * *
39685316 TTTTGCCCTAGAATTTTTACTCCC-TCCCAC
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
*
39685346 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
39685376 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.18, C:0.37, G:0.03, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:39687934 original size:10 final size:10
Alignment explanation
Indices: 39687893--39687944 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
39687883 CCACATCAGT
39687893 AATTAATTAAA
1 AATT-ATTAAA
**
39687904 AAACATTAAA
1 AATTATTAAA
*
39687914 AATCATT-AA
1 AATTATTAAA
39687923 AATTATTAAA
1 AATTATTAAA
39687933 AATTA-TAAA
1 AATTATTAAA
39687942 AAT
1 AAT
39687945 ACCAAAAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 15 0.42
10 19 0.53
11 2 0.06
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (10 bp):
AATTATTAAA
Found at i:39687943 original size:19 final size:19
Alignment explanation
Indices: 39687908--39687944 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39687898 ATTAAAAAAC
*
39687908 ATTAAAAATCATTAAAATT
1 ATTAAAAATCATAAAAATT
*
39687927 ATTAAAAATTATAAAAAT
1 ATTAAAAATCATAAAAAT
39687945 ACCAAAAAGT
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:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAAAAATCATAAAAATT
Found at i:39688086 original size:16 final size:17
Alignment explanation
Indices: 39688061--39688100 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
39688051 GTTAAAGGGC
*
39688061 TAAAAAGGAGGA-AAAA
1 TAAAATGGAGGACAAAA
39688077 TAAAATGGAGGACTAAAA
1 TAAAATGGAGGAC-AAAA
39688095 TAAAAT
1 TAAAAT
39688101 TTTGTAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.62, C:0.03, G:0.20, T:0.15
Consensus pattern (17 bp):
TAAAATGGAGGACAAAA
Found at i:39695453 original size:13 final size:13
Alignment explanation
Indices: 39695430--39695463 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
39695420 AACCAAAACC
39695430 AATAGATACTTATT
1 AATA-ATACTTATT
39695444 AATAATACTTATT
1 AATAATACTTATT
*
39695457 AAAAATA
1 AATAATA
39695464 GTCCAAGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (13 bp):
AATAATACTTATT
Found at i:39696737 original size:227 final size:224
Alignment explanation
Indices: 39696324--39696742 Score: 588
Period size: 225 Copynumber: 1.9 Consensus size: 224
39696314 TGGCACAATA
* * * * *
39696324 TTTATTATTTTAGGATTACAGTTTTGTGTTCTGGGCTTAGAGTTTAGGTTTAGGGGTTGGAGATT
1 TTTATTATTTTAGGATTACAATTTTGTGTACTGGGCTTAGAGTTTAGGTTTAGGGCTCGGAGACT
* * * * *
39696389 GGGGTTTAAGGTTTAAAGTTAACATTTCAGTGTTATTATCGGGTTAGTGTTTATGGCTTATAAGA
66 GGGGTTCAAGGTTTAAAGTTAACATTTCAGTGTTAATATCAGGTTAGAGTTTACGGCTTATAAGA
* * *
39696454 TAATGAAATTTACTATGTTAGGGATTGATGTTTATGTTTTACCATTTAGCGTTAATGTTTTACGA
131 TAATGAAATTTACTATGTTAGGGATTGATGTTTATGGTTTACCAGTTAGCGTTAATGATTTACGA
39696519 TTTGGGGTTTTAGGGTTCGTTACACCATG
196 TTTGGGGTTTTAGGGTTCGTTACACCATG
* *
39696548 TTTATTATTTTAGGATTACAATTTTGATG-ACATGGGTTTAGAGTTTAGGTTTAGGGCTCGGGGA
1 TTTATTATTTTAGGATTACAATTTTG-TGTAC-TGGGCTTAGAGTTTAGGTTTAGGGCTCGGAGA
* *
39696612 CTGGGGTTCAAGGTTTAGAGTTTACATTTCAGTGTTAATATCAGGTTAGAGAATTTACGGCTTAT
64 CTGGGGTTCAAGGTTTAAAGTTAACATTTCAGTGTTAATATCAGGTTAGAG--TTTACGGCTTAT
* * * * **
39696677 AAGATAATGAGATTTACTGTTTTAGGGCTTGATGTTTATGGTTTACGGGTTAGCGTTAATGATTT
127 AAGATAATGAAATTTACTATGTTAGGGATTGATGTTTATGGTTTACCAGTTAGCGTTAATGATTT
39696742 A
192 A
39696743 AGGGTTACGA
Statistics
Matches: 168, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
224 26 0.15
225 74 0.44
227 68 0.40
ACGTcount: A:0.24, C:0.07, G:0.26, T:0.43
Consensus pattern (224 bp):
TTTATTATTTTAGGATTACAATTTTGTGTACTGGGCTTAGAGTTTAGGTTTAGGGCTCGGAGACT
GGGGTTCAAGGTTTAAAGTTAACATTTCAGTGTTAATATCAGGTTAGAGTTTACGGCTTATAAGA
TAATGAAATTTACTATGTTAGGGATTGATGTTTATGGTTTACCAGTTAGCGTTAATGATTTACGA
TTTGGGGTTTTAGGGTTCGTTACACCATG
Found at i:39697564 original size:15 final size:16
Alignment explanation
Indices: 39697538--39697572 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
39697528 ATTTATAAAT
39697538 TTTAATATTGATAGTA
1 TTTAATATTGATAGTA
39697554 TTTAA-ATTGATAGTA
1 TTTAATATTGATAGTA
39697569 TTTA
1 TTTA
39697573 TAAATTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (16 bp):
TTTAATATTGATAGTA
Found at i:39698466 original size:14 final size:15
Alignment explanation
Indices: 39698436--39698469 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
39698426 CTGTTTAGGG
*
39698436 TTTCATTTCTATCCA
1 TTTCATTGCTATCCA
39698451 TTTCATTGCT-TCCA
1 TTTCATTGCTATCCA
39698465 TTTCA
1 TTTCA
39698470 GTTTTCTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.18, C:0.26, G:0.03, T:0.53
Consensus pattern (15 bp):
TTTCATTGCTATCCA
Found at i:39700190 original size:17 final size:17
Alignment explanation
Indices: 39700170--39700262 Score: 74
Period size: 17 Copynumber: 5.9 Consensus size: 17
39700160 TTATTTTCTA
39700170 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
39700187 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
*
39700201 -ATAATTTTTCTAAATT
1 TATAAGTTTTCTAAATT
* * *
39700217 TATTAGTATT-AAAATT
1 TATAAGTTTTCTAAATT
* *
39700233 TATTAG-TAT-TAAATT
1 TATAAGTTTTCTAAATT
*
39700248 TATAATTTTTCTAAA
1 TATAAGTTTTCTAAA
39700263 AAAGTGTTCT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
13 10 0.17
14 2 0.03
15 10 0.17
16 15 0.25
17 22 0.37
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:39700198 original size:30 final size:30
Alignment explanation
Indices: 39700163--39700219 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
39700153 TATTGTTTTA
*
39700163 TTTTCTATATAAGTTTTCTAAATTTATAAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
*
39700193 TTTTCTAAATAATTTTTCTAAATTTAT
1 TTTTCTAAATAAGTTTTCTAAATTTAT
39700220 TAGTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (30 bp):
TTTTCTAAATAAGTTTTCTAAATTTATAAG
Found at i:39700213 original size:13 final size:13
Alignment explanation
Indices: 39700163--39700215 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
39700153 TATTGTTTTA
*
39700163 TTTTCTATATAAG
1 TTTTCTAAATAAG
39700176 TTTTCTAAATTTATAAG
1 TTTTCT-AA---ATAAG
*
39700193 TTTTCTAAATAAT
1 TTTTCTAAATAAG
39700206 TTTTCTAAAT
1 TTTTCTAAAT
39700216 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 20 0.59
14 1 0.03
16 2 0.06
17 11 0.32
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (13 bp):
TTTTCTAAATAAG
Found at i:39700246 original size:15 final size:15
Alignment explanation
Indices: 39700211--39700250 Score: 71
Period size: 16 Copynumber: 2.6 Consensus size: 15
39700201 ATAATTTTTC
39700211 TAAATTTATTAGTAT
1 TAAATTTATTAGTAT
39700226 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
39700242 TAAATTTAT
1 TAAATTTAT
39700251 AATTTTTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:39700309 original size:15 final size:15
Alignment explanation
Indices: 39700289--39700407 Score: 57
Period size: 15 Copynumber: 7.6 Consensus size: 15
39700279 TTATTCGCTT
39700289 ACATAATACATAATA
1 ACATAATACATAATA
39700304 ACATAATACATAACTTA
1 ACATAATACATAA--TA
* * *
39700321 TATATAAGCTTGCATAACTT
1 -ACATAA---TACATAA-TA
* *
39700341 ACATAATAACTTCCATA
1 ACATAAT-ACAT-AATA
* *
39700358 AC-TTATATATAATA
1 ACATAATACATAATA
*
39700372 ACATAAT--A-AATT
1 ACATAATACATAATA
39700384 ACATAATACATAATA
1 ACATAATACATAATA
39700399 ACATAATAC
1 ACATAATAC
39700408 CTAACTTATA
Statistics
Matches: 76, Mismatches: 16, Indels: 24
0.66 0.14 0.21
Matches are distributed among these distances:
12 10 0.13
13 1 0.01
14 6 0.08
15 30 0.39
16 4 0.05
17 7 0.09
18 6 0.08
19 5 0.07
20 1 0.01
21 6 0.08
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (15 bp):
ACATAATACATAATA
Found at i:39700338 original size:21 final size:20
Alignment explanation
Indices: 39700312--39700369 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 20
39700302 TAACATAATA
*
39700312 CATAACTTATATATAAGCTTG
1 CATAACTTATATATAA-CTTC
*
39700333 CATAACTTACATAATAACTTC
1 CATAACTTATAT-ATAACTTC
39700354 CATAACTTATATATAA
1 CATAACTTATATATAA
39700370 TAACATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 25 0.76
22 4 0.12
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (20 bp):
CATAACTTATATATAACTTC
Found at i:39700433 original size:21 final size:21
Alignment explanation
Indices: 39700409--39700483 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
39700399 ACATAATACC
* *
39700409 TAACTTATAT-ATAAGCTTGCA
1 TAACTTACATAATAA-CTTCCA
39700430 TAACTTACATAATAACTTCCA
1 TAACTTACATAATAACTTCCA
** **
39700451 TAACTTA-ATACACCACTTAAA
1 TAACTTACATA-ATAACTTCCA
39700472 TAACTTACATAA
1 TAACTTACATAA
39700484 CTTACATAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.07
21 35 0.78
22 7 0.16
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (21 bp):
TAACTTACATAATAACTTCCA
Found at i:39700483 original size:9 final size:9
Alignment explanation
Indices: 39700465--39700944 Score: 190
Period size: 9 Copynumber: 56.3 Consensus size: 9
39700455 TTAATACACC
*
39700465 ACTTAAATA
1 ACTTACATA
39700474 ACTTACATA
1 ACTTACATA
39700483 ACTTACATA
1 ACTTACATA
*
39700492 GCTTACATA
1 ACTTACATA
*
39700501 AC-T-CATT
1 ACTTACATA
39700508 ACTTACATA
1 ACTTACATA
*
39700517 ACATACATA
1 ACTTACATA
39700526 A--TACATA
1 ACTTACATA
39700533 ACTTACATA
1 ACTTACATA
**
39700542 AAATAC--A
1 ACTTACATA
39700549 ACTTACATA
1 ACTTACATA
*
39700558 TCTTACATA
1 ACTTACATA
39700567 A--TACATA
1 ACTTACATA
*
39700574 ACTTATATA
1 ACTTACATA
39700583 A--TACA-A
1 ACTTACATA
*
39700589 CACTTACAGA
1 -ACTTACATA
* *
39700599 AATTAAATA
1 ACTTACATA
*
39700608 ACTTGCATA
1 ACTTACATA
*
39700617 A--AACATA
1 ACTTACATA
* *
39700624 GCCTACATA
1 ACTTACATA
*
39700633 ACTTATATA
1 ACTTACATA
*
39700642 ACTTTCATA
1 ACTTACATA
**
39700651 AAATAC--A
1 ACTTACATA
39700658 ACTTACATA
1 ACTTACATA
**
39700667 TTTTACATAAA
1 ACTTACAT--A
39700678 ACTTACATA
1 ACTTACATA
39700687 A--TACA-A
1 ACTTACATA
39700693 CACTTACATA
1 -ACTTACATA
*
39700703 ACTTAAATA
1 ACTTACATA
*
39700712 ACTTGCATA
1 ACTTACATA
39700721 A--TACATA
1 ACTTACATA
39700728 GAC-TACATA
1 -ACTTACATA
** *
39700737 ACTTATTTTT
1 ACTTA-CATA
*
39700747 CCTTACATA
1 ACTTACATA
39700756 A--TACA-A
1 ACTTACATA
*
39700762 CACTTACACA
1 -ACTTACATA
*
39700772 ACTTAAATA
1 ACTTACATA
*
39700781 ACTTGCATA
1 ACTTACATA
*
39700790 A--TACACA
1 ACTTACATA
* *
39700797 GCCTACATA
1 ACTTACATA
*
39700806 ACTTA-ATTTG
1 ACTTACA--TA
*
39700816 CCTTACATA
1 ACTTACATA
39700825 A--TACA-A
1 ACTTACATA
39700831 CACTTACATA
1 -ACTTACATA
39700841 ACTTACATA
1 ACTTACATA
**
39700850 GGTTACATA
1 ACTTACATA
*
39700859 A--TACACA
1 ACTTACATA
*
39700866 ACTTAAATA
1 ACTTACATA
*
39700875 ACTTATATA
1 ACTTACATA
39700884 A--TACATA
1 ACTTACATA
39700891 ACTTACATA
1 ACTTACATA
*
39700900 A-TTACTTA
1 ACTTACATA
39700908 A--TACATA
1 ACTTACATA
* *
39700915 A-ATATATA
1 ACTTACATA
* *
39700923 TCATATCATA
1 ACTTA-CATA
39700933 ACTTACATA
1 ACTTACATA
39700942 ACT
1 ACT
39700945 CATTTAATTT
Statistics
Matches: 346, Mismatches: 79, Indels: 92
0.67 0.15 0.18
Matches are distributed among these distances:
6 4 0.01
7 79 0.23
8 18 0.05
9 217 0.63
10 20 0.06
11 8 0.02
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:39700514 original size:16 final size:17
Alignment explanation
Indices: 39700474--39700904 Score: 88
Period size: 16 Copynumber: 25.4 Consensus size: 17
39700464 CACTTAAATA
39700474 ACTTACATAACTTACAT
1 ACTTACATAACTTACAT
39700491 AGCTTACATAAC-T-CATT
1 A-CTTACATAACTTACA-T
*
39700508 ACTTACATAACATACAT
1 ACTTACATAACTTACAT
*
39700525 A-ATACATAACTTACAT
1 ACTTACATAACTTACAT
**
39700541 AAAATAC--AACTTACAT
1 -ACTTACATAACTTACAT
39700557 ATCTTACATAA--TACAT
1 A-CTTACATAACTTACAT
* *
39700573 AACTTATATAA--TACAAC
1 -ACTTACATAACTTAC-AT
* * *
39700590 ACTTACAGAAATTAAAT
1 ACTTACATAACTTACAT
* *
39700607 AACTTGCATAA--AACAT
1 -ACTTACATAACTTACAT
* *
39700623 AGCCTACATAACTTATAT
1 A-CTTACATAACTTACAT
* **
39700641 AACTTTCATAAAATACA-
1 -ACTTACATAACTTACAT
**
39700658 ACTTACATATTTTACAT
1 ACTTACATAACTTACAT
*
39700675 AAAACTTACATAA--TACAAC
1 ---ACTTACATAACTTAC-AT
*
39700694 ACTTACATAACTTAAAT
1 ACTTACATAACTTACAT
*
39700711 AACTTGCATAA--TACAT
1 -ACTTACATAACTTACAT
**
39700727 AGAC-TACATAACTTATTTTT
1 --ACTTACATAACTTA--CAT
* *
39700747 CCTTACATAA--TACAAC
1 ACTTACATAACTTAC-AT
* *
39700763 ACTTACACAACTTAAAT
1 ACTTACATAACTTACAT
* *
39700780 AACTTGCATAA--TACAC
1 -ACTTACATAACTTACAT
*
39700796 AGCCTACATAACTTA-ATTT
1 A-CTTACATAACTTACA--T
* *
39700815 GCCTTACATAA--TACAAC
1 -ACTTACATAACTTAC-AT
39700832 ACTTACATAACTTACAT
1 ACTTACATAACTTACAT
* *
39700849 AGGTTACATAA--TACACA
1 A-CTTACATAACTTACA-T
* *
39700866 ACTTAAATAACTTATAT
1 ACTTACATAACTTACAT
*
39700883 A-ATACATAACTTACAT
1 ACTTACATAACTTACAT
*
39700899 AATTAC
1 ACTTAC
39700905 TTAATACATA
Statistics
Matches: 296, Mismatches: 67, Indels: 102
0.64 0.14 0.22
Matches are distributed among these distances:
15 3 0.01
16 154 0.52
17 27 0.09
18 84 0.28
19 18 0.06
20 10 0.03
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (17 bp):
ACTTACATAACTTACAT
Found at i:39700567 original size:34 final size:34
Alignment explanation
Indices: 39700520--39700891 Score: 140
Period size: 34 Copynumber: 10.7 Consensus size: 34
39700510 TTACATAACA
39700520 TACATAA--TACATAACTTACATAAAATACAACT
1 TACATAACTTACATAACTTACATAAAATACAACT
* * *
39700552 TACATATCTTACATAATACATAACTTATATAATACAACACT
1 TACATAACTTACAT-A-AC-TTAC--ATAAAATAC-A-ACT
* * * * * * * *
39700593 TACAGAAATTAAATAACTTGCATAAAACATAGCC
1 TACATAACTTACATAACTTACATAAAATACAACT
* *
39700627 TACATAACTTATATAACTTTCATAAAATACAACT
1 TACATAACTTACATAACTTACATAAAATACAACT
**
39700661 TACATATTTTACATAAAACTTACAT--AATACAACACT
1 TACATAACTTACAT--AACTTACATAAAATAC-A-ACT
* * *
39700697 TACATAACTTAAATAACTTGCATAATACATA-GAC-
1 TACATAACTTACATAACTTACATAA-A-ATACAACT
** **
39700731 TACATAACTTATTTTTCCTTACAT--AATACAACACT
1 TACATAACTTA-CATAACTTACATAAAATAC-A-ACT
* * * * * * *
39700766 TACACAACTTAAATAACTTGCATAATACACAGCC
1 TACATAACTTACATAACTTACATAAAATACAACT
**
39700800 TACATAACTTA-ATTTGCCTTACAT--AATACAACACT
1 TACATAACTTACA--TAACTTACATAAAATAC-A-ACT
** * *
39700835 TACATAACTTACATAGGTTACATAATACACAACT
1 TACATAACTTACATAACTTACATAAAATACAACT
* *
39700869 TAAATAACTTATATAA--TACATAA
1 TACATAACTTACATAACTTACATAA
39700892 CTTACATAAT
Statistics
Matches: 246, Mismatches: 63, Indels: 62
0.66 0.17 0.17
Matches are distributed among these distances:
31 3 0.01
32 14 0.06
33 4 0.02
34 111 0.45
35 43 0.17
36 37 0.15
37 4 0.02
38 5 0.02
39 10 0.04
40 2 0.01
41 13 0.05
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (34 bp):
TACATAACTTACATAACTTACATAAAATACAACT
Found at i:39700576 original size:25 final size:26
Alignment explanation
Indices: 39700471--39700741 Score: 119
Period size: 25 Copynumber: 10.7 Consensus size: 26
39700461 CACCACTTAA
*
39700471 ATAACTTACATAACTTACATAGCTTAC
1 ATAACTTACATAACTTACATA-CATAC
*
39700498 ATAAC-T-CATTACTTACATAACATAC
1 ATAACTTACATAACTTACAT-ACATAC
*
39700523 ATAA--TACATAACTTACATAAAATAC
1 ATAACTTACATAACTTACAT-ACATAC
*
39700548 --AACTTACATATCTTACATA-ATAC
1 ATAACTTACATAACTTACATACATAC
*
39700571 ATAACTTATATAA--TACA-ACACTTAC
1 ATAACTTACATAACTTACATACA--TAC
* * * * *
39700596 AGAAATTAAATAACTTGCATA-AAAC
1 ATAACTTACATAACTTACATACATAC
* * * * *
39700621 ATAGCCTACATAACTTATATAACTTTC
1 ATAACTTACATAACTTACAT-ACATAC
** **
39700648 ATAAAATAC--AACTTACATATTTTAC
1 ATAACTTACATAACTTACATA-CATAC
39700673 ATAAAACTTACATAA--TACA-ACACTTAC
1 AT--AACTTACATAACTTACATACA--TAC
* *
39700700 ATAACTTAAATAACTTGCATA-ATAC
1 ATAACTTACATAACTTACATACATAC
39700725 ATAGAC-TACATAACTTA
1 ATA-ACTTACATAACTTA
39700742 TTTTTCCTTA
Statistics
Matches: 183, Mismatches: 36, Indels: 52
0.68 0.13 0.19
Matches are distributed among these distances:
22 1 0.01
23 11 0.06
24 3 0.02
25 124 0.68
26 6 0.03
27 34 0.19
28 2 0.01
29 2 0.01
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.31
Consensus pattern (26 bp):
ATAACTTACATAACTTACATACATAC
Found at i:39700777 original size:69 final size:69
Alignment explanation
Indices: 39700679--39700880 Score: 298
Period size: 69 Copynumber: 2.9 Consensus size: 69
39700669 TTACATAAAA
*
39700679 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACATAGACTACATAACTTATT
1 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACACAGACTACATAACTTATT
*
39700744 TTTC
66 TTGC
* * *
39700748 CTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACACAGCCTACATAACTTAAT
1 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACACAGACTACATAACTTATT
39700813 TTGC
66 TTGC
* ** * *
39700817 CTTACATAATACAACACTTACATAACTTACATAGGTTACATAATACACA-ACTTAAATAACTTAT
1 CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACACAGAC-TACATAACTTAT
39700881 ATAATACATA
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
68 1 0.01
69 118 0.99
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.32
Consensus pattern (69 bp):
CTTACATAATACAACACTTACATAACTTAAATAACTTGCATAATACACAGACTACATAACTTATT
TTGC
Found at i:39700863 original size:25 final size:24
Alignment explanation
Indices: 39700835--39700915 Score: 99
Period size: 25 Copynumber: 3.3 Consensus size: 24
39700825 ATACAACACT
*
39700835 TACATAACTTACATAGGTTACATAA
1 TACATAACTTACATA-ATTACATAA
* * *
39700860 TACACAACTTAAATAACTTATATAA
1 TACATAACTTACATAA-TTACATAA
*
39700885 TACATAACTTACATAATTACTTAA
1 TACATAACTTACATAATTACATAA
39700909 TACATAA
1 TACATAA
39700916 ATATATATCA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
24 13 0.28
25 34 0.72
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.33
Consensus pattern (24 bp):
TACATAACTTACATAATTACATAA
Found at i:39709196 original size:49 final size:48
Alignment explanation
Indices: 39709096--39709209 Score: 113
Period size: 49 Copynumber: 2.4 Consensus size: 48
39709086 CCGTGTGGTC
* * * *
39709096 CACATGGTTTACCACATGGTCTACAGAGTTTCACATGGCCATGTGCCA
1 CACATGGTTGACCACACGGTCTACAGAGTTTCACATGACCATGGGCCA
* * * * *
39709144 CACATGGCTTGACCACACGGTTTATAGAGTTTCACATGATCGTGGGCTA
1 CACATGG-TTGACCACACGGTCTACAGAGTTTCACATGACCATGGGCCA
*
39709193 CACACGGTCT-ACCACAC
1 CACATGGT-TGACCACAC
39709210 AGCTTGTCAC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
48 15 0.28
49 39 0.72
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (48 bp):
CACATGGTTGACCACACGGTCTACAGAGTTTCACATGACCATGGGCCA
Found at i:39710369 original size:20 final size:19
Alignment explanation
Indices: 39710323--39710374 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
39710313 AAAAAATCTT
*
39710323 AAAATATTTAACAATTACA
1 AAAATATTTAAAAATTACA
39710342 AAAATATTTAAAAATTACA
1 AAAATATTTAAAAATTACA
39710361 AAAATTATTTAAAA
1 AAAA-TATTTAAAA
39710375 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 22 0.71
20 9 0.29
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATATTTAAAAATTACA
Found at i:39710375 original size:19 final size:19
Alignment explanation
Indices: 39710323--39710427 Score: 80
Period size: 19 Copynumber: 5.7 Consensus size: 19
39710313 AAAAAATCTT
39710323 AAAA-TATTTAACAATTACA
1 AAAATTATTTAA-AATTACA
39710342 AAAA-TATTTAAAAATTACA
1 AAAATTATTT-AAAATTACA
* *
39710361 AAAATTATTTAAAATAAAA
1 AAAATTATTTAAAATTACA
* *
39710380 TAAAATTA-TT-GAATT--G
1 -AAAATTATTTAAAATTACA
* *
39710396 TAAATT-TATAAAATTACA
1 AAAATTATTTAAAATTACA
39710414 AAAATTATTTAAAA
1 AAAATTATTTAAAA
39710428 AATAGAAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
15 6 0.09
16 4 0.06
18 8 0.12
19 35 0.52
20 14 0.21
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTATTTAAAATTACA
Found at i:39710464 original size:10 final size:10
Alignment explanation
Indices: 39710451--39710478 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
39710441 ATCAAAATAT
39710451 TAAAATTTAC
1 TAAAATTTAC
39710461 TAAAATTTAC
1 TAAAATTTAC
39710471 TAAAATTT
1 TAAAATTT
39710479 TTAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
TAAAATTTAC
Found at i:39710485 original size:9 final size:9
Alignment explanation
Indices: 39710450--39710521 Score: 54
Period size: 10 Copynumber: 7.6 Consensus size: 9
39710440 TATCAAAATA
39710450 TTAAAATTT
1 TTAAAATTT
*
39710459 ACTAAAATTT
1 -TTAAAATTT
*
39710469 ACTAAAATTT
1 -TTAAAATTT
*
39710479 TTAAAATATA
1 TTAAAAT-TT
*
39710489 TTAAAAATT
1 TTAAAATTT
* *
39710498 TTAATATTC
1 TTAAAATTT
39710507 TTAAAATTT
1 TTAAAATTT
39710516 TATAAA
1 T-TAAA
39710522 TCATATTTGT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
9 21 0.42
10 29 0.58
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (9 bp):
TTAAAATTT
Found at i:39710485 original size:19 final size:19
Alignment explanation
Indices: 39710451--39710501 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
39710441 ATCAAAATAT
* *
39710451 TAAAATTTACTAAAATTTAC
1 TAAAATTT-TTAAAATATAC
*
39710471 TAAAATTTTTAAAATATAT
1 TAAAATTTTTAAAATATAC
*
39710490 TAAAAATTTTAA
1 TAAAATTTTTAA
39710502 TATTCTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAAATTTTTAAAATATAC
Found at i:39710522 original size:9 final size:8
Alignment explanation
Indices: 39710444--39710522 Score: 50
Period size: 9 Copynumber: 8.6 Consensus size: 8
39710434 AAAAAATATC
*
39710444 AAAATATT
1 AAAATTTT
39710452 AAAATTTACT
1 AAAATTT--T
39710462 AAAATTTACT
1 AAAATTT--T
39710472 AAAATTTTT
1 AAAA-TTTT
39710481 AAAATATATT
1 AAAAT-T-TT
39710491 AAAAATTTT
1 -AAAATTTT
*
39710500 AATATTCTT
1 AAAATT-TT
39710509 AAAATTTT
1 AAAATTTT
39710517 ATAAAT
1 A-AAAT
39710523 CATATTTGTT
Statistics
Matches: 60, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
8 15 0.25
9 19 0.32
10 18 0.30
11 8 0.13
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:39717172 original size:31 final size:29
Alignment explanation
Indices: 39717130--39717208 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
39717120 TATTAAATCT
*
39717130 ATACATAAACTTTTATTTAATGTGCAATGTC
1 ATACATGAACTTTTATTT--TGTGCAATGTC
* * * *
39717161 ATACATGAACTTTGATTTTGTTCGATTTC
1 ATACATGAACTTTTATTTTGTGCAATGTC
*
39717190 ATACATGAAATTTTGATTT
1 ATACATGAACTTTT-ATTT
39717209 GATTAAGTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 20 0.50
30 4 0.10
31 16 0.40
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (29 bp):
ATACATGAACTTTTATTTTGTGCAATGTC
Found at i:39719922 original size:30 final size:32
Alignment explanation
Indices: 39719872--39719931 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
39719862 AAATTTTTAA
39719872 ATTTTTAAAAATTCAAAAAAT-TGTAAAAATT
1 ATTTTTAAAAATTCAAAAAATATGTAAAAATT
*
39719903 ATTTTTAAAAATT-AAAAAATATTTAAAAA
1 ATTTTTAAAAATTCAAAAAATATGTAAAAA
39719932 GTATAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (32 bp):
ATTTTTAAAAATTCAAAAAATATGTAAAAATT
Found at i:39723912 original size:39 final size:37
Alignment explanation
Indices: 39723852--39723928 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 37
39723842 TCACATCGAT
*
39723852 AATTAATTAAAATTTTAAAAATA-TAGAAAATTATTTA
1 AATTAATTAAAATTTTAAAAATATTA-AAAATTAATTA
* *
39723889 AATTATTTAAATATTTTGTAAAATATTAAAAATTAATTA
1 AATTAATTAAA-ATTTT-AAAAATATTAAAAATTAATTA
39723928 A
1 A
39723929 TAGTTCATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 10 0.29
38 5 0.15
39 17 0.50
40 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (37 bp):
AATTAATTAAAATTTTAAAAATATTAAAAATTAATTA
Found at i:39726291 original size:114 final size:115
Alignment explanation
Indices: 39725937--39726517 Score: 483
Period size: 114 Copynumber: 5.1 Consensus size: 115
39725927 CCTGAAGAAC
* * * * *
39725937 TAGTGGCGTTTCTAAAAAAACGCCATAAAAGAACATAATTAGCGGTGTTTA-TTGTAAGCGCCGC
1 TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGCGGCGTTTATTTGGAAGCGCCGC
* *
39726001 AAAATACCTTAACCAAAACGCAGCG-TTGGT-TCAATTGTATATTAGA-AT
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTCTCAA-GGTAGATTAGATAT
* ** * *****
39726049 TCGTGGCGTTTTTTTATAAAAAAACGCCGCGAAAGAATAGT-ATTAGCGGCGTTTAACAAAAAGC
1 TAGTGGCG--TTTTT-T-AAAAAACGCCGTAAAAGAACA-TAATTAGCGGCGTTTATTTGGAAGC
* ** * ** **
39726113 GCCGC-AAATATCTTAAGGAAAACGCACCGTTTTATCTTGAGGTAGATTA-ATAT
61 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTCAAGGTAGATTAGATAT
* *
39726166 TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCGC
1 TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGCGGCGTTTATTTGGAAGCGCCGC
* * *
39726231 AAAATACCTTAACCAAAACGCAGCGTTTGGT-TCAATTGTATATTAGACAT
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTCTCAA-GGTAGATTAGATAT
* ** * * *
39726281 T-GTGGCGTTTTCTGTAAAACGCCGCAAAAGAATAGT-ATTAGCGGCG-TT-TTCGGTAAAGCGC
1 TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACA-TAATTAGCGGCGTTTATTTGG--AAGCGC
* ** * * * **
39726342 CGC-AAATATCTTAATGAAAATGCACCGTTTCGTCTTGAGGTAGATTAG-TAT
63 CGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTCAAGGTAGATTAGATAT
* ** *
39726393 TAGTGGCG-TTTTTAGAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATGCGCCG
1 TAGTGGCGTTTTTTA-AAAAACGCCGTAAAAGAACATAATTAGCGGCGTTTATTTGGAAGCGCCG
* * ** *
39726457 CAAAATACCTTAACCAAAACGCAGCGTTTTGTTTTGAGGTATATTAGA-AT
65 CAAAATACCTTAACCAAAACGCAGCGTTTGGTCTCAAGGTAGATTAGATAT
39726507 TAGTGGCGTTT
1 TAGTGGCGTTT
39726518 ACGATAAAAC
Statistics
Matches: 363, Mismatches: 81, Indels: 47
0.74 0.16 0.10
Matches are distributed among these distances:
112 20 0.06
113 115 0.32
114 132 0.36
115 14 0.04
116 51 0.14
117 29 0.08
118 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (115 bp):
TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGCGGCGTTTATTTGGAAGCGCCGC
AAAATACCTTAACCAAAACGCAGCGTTTGGTCTCAAGGTAGATTAGATAT
Found at i:39726346 original size:227 final size:229
Alignment explanation
Indices: 39725937--39726517 Score: 836
Period size: 227 Copynumber: 2.5 Consensus size: 229
39725927 CCTGAAGAAC
* * * * * *
39725937 TAGTGGCGTTTCTAAAAAAACGCCATAAAAGAACATAATTAGCGGTGTTTA-TTGTAAGCGCCGC
1 TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
*
39726001 AAAATACCTTAACCAAAACGCAGCG-TTGGTTCAATTGTATATTAGAATTCGTGGCGTTTTTTTA
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGAATTCGTGGCGTTTTTCTA
*
39726065 TAAAAAAACGCCGCGAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAG
131 T--AAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAG
*
39726130 GAAAACGCACCGTTTTATCTTGAGGTAGATTAATAT
194 GAAAACGCACCGTTTCATCTTGAGGTAGATTAATAT
*
39726166 TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCGC
1 TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
39726231 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGACATT-GTGGCG-TTTTCT
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGA-ATTCGTGGCGTTTTTCT
* * ** *
39726294 GT-AAAACGCCGCAAAAGAATAGTATTAGCGGCGTTT-TCGGTAAAGCGCCGCAAATATCTTAAT
130 ATAAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAAC-AAAAAGCGCCGCAAATATCTTAAG
* * *
39726357 GAAAATGCACCGTTTCGTCTTGAGGTAGATTAGTAT
194 GAAAACGCACCGTTTCATCTTGAGGTAGATTAATAT
*
39726393 TAGTGGCG-TTTTTAGAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATGCGCCG
1 TAGTGGCGTTTTTTA-AAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCG
* ** * *
39726457 CAAAATACCTTAACCAAAACGCAGCGTTTTGTTTTGA-GGTATATTAGAATTAGTGGCGTTT
65 CAAAATACCTTAACCAAAACGCAGCG-TTTGGTTCAATTGTATATTAGAATTCGTGGCGTTT
39726518 ACGATAAAAC
Statistics
Matches: 320, Mismatches: 24, Indels: 17
0.89 0.07 0.05
Matches are distributed among these distances:
226 10 0.03
227 183 0.57
228 9 0.03
229 46 0.14
230 42 0.13
231 27 0.08
232 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (229 bp):
TAGTGGCGTTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGAATTCGTGGCGTTTTTCTA
TAAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGA
AAACGCACCGTTTCATCTTGAGGTAGATTAATAT
Found at i:39726688 original size:187 final size:188
Alignment explanation
Indices: 39726317--39726716 Score: 604
Period size: 187 Copynumber: 2.1 Consensus size: 188
39726307 AAAGAATAGT
* * * *
39726317 ATTAGCGGCGTTTTCGGTAAAGCGCCGCAAATATCTTAATGAAAATGCACCGTTTCGTCTTGAGG
1 ATTAGTGGCGTTTACGGTAAAACGCCGCAAATATCTTAACGAAAATGCACCGTTTCGTCTTGAGG
* *
39726382 TAGATTAGTATTAGTGGCGTTTTTAGAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
66 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
** * *
39726447 TTATGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTTGTTTTGAGGTATATTAGA
131 GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
* * *
39726505 ATTAGTGGCGTTTACGATAAAACGTCGCAAATATCTTAACGAAAATGCACCGTTTGGTCTTGAGG
1 ATTAGTGGCGTTTACGGTAAAACGCCGCAAATATCTTAACGAAAATGCACCGTTTCGTCTTGAGG
*
39726570 TAGATTAATATTAGTGGCG-TTTTAAAAAAATGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
66 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
* * * * *
39726634 GGAAGCGCCGCAAAGTGCCTTAACCAAAATGCAGTGTTTGGTTTTGATGTATATTAGA
131 GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
* *
39726692 ATTAGTGGCATTTATGGTAAAACGC
1 ATTAGTGGCGTTTACGGTAAAACGC
39726717 TGCTAAAGAA
Statistics
Matches: 189, Mismatches: 23, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
187 113 0.60
188 76 0.40
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (188 bp):
ATTAGTGGCGTTTACGGTAAAACGCCGCAAATATCTTAACGAAAATGCACCGTTTCGTCTTGAGG
TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
Found at i:39727142 original size:7 final size:7
Alignment explanation
Indices: 39727132--39727182 Score: 70
Period size: 7 Copynumber: 7.6 Consensus size: 7
39727122 GGTTTATGGA
39727132 TTAGGGG
1 TTAGGGG
39727139 TTAGGGG
1 TTAGGGG
*
39727146 TTATGGG
1 TTAGGGG
39727153 TTAGGGG
1 TTAGGGG
*
39727160 TTAAGGG
1 TTAGGGG
39727167 TTA--GG
1 TTAGGGG
39727172 TTAGGGG
1 TTAGGGG
39727179 TTAG
1 TTAG
39727183 ATGTTAAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
5 5 0.13
7 34 0.87
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:39727150 original size:21 final size:20
Alignment explanation
Indices: 39727125--39727182 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
39727115 GATTTAAGGT
39727125 TTATGGATTAGGGGTTAGGGG
1 TTATGG-TTAGGGGTTAGGGG
*
39727146 TTATGGGTTAGGGGTTAAGGG
1 TTAT-GGTTAGGGGTTAGGGG
39727167 TTA-GGTTAGGGGTTAG
1 TTATGGTTAGGGGTTAG
39727183 ATGTTAAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.35
21 20 0.59
22 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.34
Consensus pattern (20 bp):
TTATGGTTAGGGGTTAGGGG
Found at i:39727155 original size:14 final size:14
Alignment explanation
Indices: 39727136--39727198 Score: 67
Period size: 14 Copynumber: 4.6 Consensus size: 14
39727126 TATGGATTAG
*
39727136 GGGTTAGGGGTTAT
1 GGGTTAGGGGTTAA
39727150 GGGTTAGGGGTTAA
1 GGGTTAGGGGTTAA
*
39727164 GGGTTA--GGTTAG
1 GGGTTAGGGGTTAA
**
39727176 GGGTTAGATGTTAA
1 GGGTTAGGGGTTAA
*
39727190 GAGTTAGGG
1 GGGTTAGGG
39727199 TTTAGGATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 11 0.28
14 29 0.73
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.32
Consensus pattern (14 bp):
GGGTTAGGGGTTAA
Found at i:39727179 original size:26 final size:26
Alignment explanation
Indices: 39727144--39727197 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
39727134 AGGGGTTAGG
* * *
39727144 GGTTATGGGTTAGGGGTTAAGGGTTA
1 GGTTAGGGGTTAGAGGTTAAGAGTTA
*
39727170 GGTTAGGGGTTAGATGTTAAGAGTTA
1 GGTTAGGGGTTAGAGGTTAAGAGTTA
39727196 GG
1 GG
39727198 GTTTAGGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.33
Consensus pattern (26 bp):
GGTTAGGGGTTAGAGGTTAAGAGTTA
Found at i:39727204 original size:33 final size:33
Alignment explanation
Indices: 39727137--39727200 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
39727127 ATGGATTAGG
* *
39727137 GGTTAGGGGTTATGGGTTAGGGGTTAAGGGTTA
1 GGTTAGGGGTTATGGGTTAAGAGTTAAGGGTTA
*
39727170 GGTTAGGGGTTA-GATGTTAAGAGTT-AGGGTT
1 GGTTAGGGGTTATG-GGTTAAGAGTTAAGGGTT
39727201 TAGGATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.34
Consensus pattern (33 bp):
GGTTAGGGGTTATGGGTTAAGAGTTAAGGGTTA
Found at i:39727297 original size:7 final size:7
Alignment explanation
Indices: 39727281--39727349 Score: 84
Period size: 7 Copynumber: 9.9 Consensus size: 7
39727271 TAAATAAGTT
*
39727281 TTAGGTG
1 TTAGGGG
39727288 TTAGGGG
1 TTAGGGG
*
39727295 TTAGAGG
1 TTAGGGG
* *
39727302 TCATGGG
1 TTAGGGG
*
39727309 TTAAGGG
1 TTAGGGG
39727316 TTAGGGG
1 TTAGGGG
*
39727323 TTAAGGG
1 TTAGGGG
39727330 TTAGGGG
1 TTAGGGG
39727337 TTAGGGG
1 TTAGGGG
39727344 TTAGGG
1 TTAGGG
39727350 ATTGGGTTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.19, C:0.01, G:0.49, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:39727507 original size:95 final size:96
Alignment explanation
Indices: 39727316--39727504 Score: 229
Period size: 95 Copynumber: 2.0 Consensus size: 96
39727306 GGGTTAAGGG
* * * *
39727316 TTAGGGGTTAAGGGTTAGGGGTTAGGGGTTAGGGATTGGGTTATGGTTTAAGGTTTAGATTAATT
1 TTAGGGGTTAAGGGTTAGGGGTTAGGGGTTAGGGATCGGGTTAGGGATTAAGATTTAGATTAATT
* * * * *
39727381 AGTGTTTTTTATTTTATATATTAAATAAAGT
66 AGTCTTATTTAATTAACATATTAAATAAAGT
* * * *
39727412 TTAGGGGTTAGGGGTTA-GGGTTATGGGTT-TGGAGTCGGGTTAGGGATTAAGATTTGGATTAAT
1 TTAGGGGTTAAGGGTTAGGGGTTAGGGGTTAGGGA-TCGGGTTAGGGATTAAGATTTAGATTAAT
39727475 TAGTACTTATTTAATTAACATATTAAATAA
65 TAGT-CTTATTTAATTAACATATTAAATAA
39727505 GTTCTTTATA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
94 3 0.04
95 39 0.50
96 36 0.46
ACGTcount: A:0.28, C:0.02, G:0.30, T:0.41
Consensus pattern (96 bp):
TTAGGGGTTAAGGGTTAGGGGTTAGGGGTTAGGGATCGGGTTAGGGATTAAGATTTAGATTAATT
AGTCTTATTTAATTAACATATTAAATAAAGT
Found at i:39727594 original size:14 final size:14
Alignment explanation
Indices: 39727575--39727601 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39727565 GATATGCAAT
39727575 ATATAATAATTTGA
1 ATATAATAATTTGA
39727589 ATATAATAATTTG
1 ATATAATAATTTG
39727602 GAATTGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
ATATAATAATTTGA
Found at i:39727670 original size:18 final size:18
Alignment explanation
Indices: 39727629--39727669 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
39727619 TCAAATTTAC
*
39727629 AAAAAATAAAATGAAAAT
1 AAAAAATAAAAAGAAAAT
*
39727647 AGAAAATAAAAAG-AAAT
1 AAAAAATAAAAAGAAAAT
39727664 AAAAAA
1 AAAAAA
39727670 ACTAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAAAATAAAAAGAAAAT
Found at i:39728445 original size:198 final size:198
Alignment explanation
Indices: 39728136--39728527 Score: 624
Period size: 198 Copynumber: 2.0 Consensus size: 198
39728126 CGCAATTTTA
*
39728136 AGAAATTGTTTACGAAAACGGCTCCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTACACGCC
1 AGAAATTGTTTACGAAAACGGCTCCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTAAACGCC
* * * * * ** *
39728201 GCAAAATTATTTTAATTTTTGTGGAGACGATGCCGTTTTTTCTAAAACGCCATGAGTTTTAGTTT
66 GCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTTA
*
39728266 ACTAATCGGGGAACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAAG
131 ACTAATCGGGAAACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAAG
39728331 TAC
196 TAC
* * *
39728334 AGAAATTGTTTAGGAAAACGGCTTCGTTTTCTTATTTA-CTTTTAGTGGCGTTTTTAGTAAACGC
1 AGAAATTGTTTACGAAAACGGCTCCGTTTTCTTATTTATC-TTTAGTGGCGCTTTTAGTAAACGC
*
39728398 CGCAAAAATGTTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTT
65 CGCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTT
* *
39728463 AACTGATCGGGAAACGACAGCGTTTGATCATATTACTAGTGGCGCTGGTATATAAACGCCGCAAA
130 AACTAATCGGGAAACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAA
39728528 TAGGTTAATT
Statistics
Matches: 177, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
197 1 0.01
198 176 0.99
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (198 bp):
AGAAATTGTTTACGAAAACGGCTCCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTAAACGCC
GCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTTA
ACTAATCGGGAAACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAAG
TAC
Found at i:39729042 original size:10 final size:10
Alignment explanation
Indices: 39729027--39729051 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
39729017 TCGAAAATTG
39729027 CAAAATTGTT
1 CAAAATTGTT
39729037 CAAAATTGTT
1 CAAAATTGTT
39729047 CAAAA
1 CAAAA
39729052 CCATGTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (10 bp):
CAAAATTGTT
Found at i:39729826 original size:18 final size:19
Alignment explanation
Indices: 39729803--39729849 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
39729793 TCACAAAAAT
*
39729803 TTATGTTTCTCTAGCA-TG
1 TTATGTTTCTCTACCATTG
* *
39729821 TTATGTTTCTGTACCATTT
1 TTATGTTTCTCTACCATTG
39729840 TTATGTTTCT
1 TTATGTTTCT
39729850 TTATTTTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.57
Consensus pattern (19 bp):
TTATGTTTCTCTACCATTG
Found at i:39729865 original size:7 final size:7
Alignment explanation
Indices: 39729853--39729939 Score: 104
Period size: 7 Copynumber: 12.3 Consensus size: 7
39729843 TGTTTCTTTA
39729853 TTTTCTG
1 TTTTCTG
39729860 TTTTCTG
1 TTTTCTG
39729867 TTTTCTG
1 TTTTCTG
*
39729874 TTTTCTA
1 TTTTCTG
39729881 TTTTCTG
1 TTTTCTG
*
39729888 CATTT-TG
1 -TTTTCTG
39729895 TTTTCTG
1 TTTTCTG
*
39729902 TTTTCTA
1 TTTTCTG
*
39729909 TTTTTTG
1 TTTTCTG
39729916 TTTTCTG
1 TTTTCTG
*
39729923 TTTTGCTA
1 TTTT-CTG
39729931 TTTTCTG
1 TTTTCTG
39729938 TT
1 TT
39729940 GAATGAAGTG
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
6 3 0.04
7 55 0.82
8 9 0.13
ACGTcount: A:0.05, C:0.13, G:0.11, T:0.71
Consensus pattern (7 bp):
TTTTCTG
Found at i:39730463 original size:100 final size:100
Alignment explanation
Indices: 39730342--39731450 Score: 2051
Period size: 100 Copynumber: 11.1 Consensus size: 100
39730332 AATATTAAAA
39730342 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
*
39730407 ATATAATTTTTTAAAATTTATATATTACATTA-TGG
66 ATATAATTTTTTAAAATTTATATATTACATTACT-T
*
39730442 GAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
*
39730507 ATATAATTTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
39730542 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
39730607 ATATAATTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
*
39730642 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTACGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
39730707 ATATAATTTTTTAAAATTTATATATTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
39730742 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
39730807 ATATAATTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
39730842 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
39730907 ATATAATTTTTTAAAATTTATATATTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
*
39730942 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATAAATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
39731007 AGATAATTTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
39731042 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
39731107 ATATAATTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
39731142 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
39731207 ATATAATTTTTTAAAATTTATATATTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
39731242 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
39731307 AGATAA-TTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
39731341 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
*
39731406 ATATAATTTTTCAAAATTTATATATTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATTACTT
39731441 AAATATATAT
1 AAATATATAT
39731451 TTTAAGTATA
Statistics
Matches: 977, Mismatches: 30, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
99 97 0.10
100 879 0.90
101 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (100 bp):
AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
ATATAATTTTTTAAAATTTATATATTACATTACTT
Found at i:39731537 original size:13 final size:13
Alignment explanation
Indices: 39731519--39731557 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
39731509 TTTTACTCTT
*
39731519 AATATATTACTTG
1 AATATATTACTTA
39731532 AATATATTACTTA
1 AATATATTACTTA
*
39731545 AATAAATTACTTA
1 AATATATTACTTA
39731558 CTAAAATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:39731589 original size:53 final size:53
Alignment explanation
Indices: 39731525--39731660 Score: 191
Period size: 53 Copynumber: 2.6 Consensus size: 53
39731515 TCTTAATATA
* * *
39731525 TTACTTGAATATATTACTTAAATAAATTACTTACTAAAATTTCGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
* ** * *
39731578 TTACTTAAATATGTTACTCAGTTACATTAATTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
*
39731631 TTACTTAAATATGTTACTTGAATACATTAC
1 TTACTTAAATATGTTACTTAAATACATTAC
39731661 CCGCTATAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 70 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (53 bp):
TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
Found at i:39731829 original size:9 final size:9
Alignment explanation
Indices: 39731805--39732055 Score: 157
Period size: 9 Copynumber: 28.8 Consensus size: 9
39731795 TATGTACAAG
39731805 AACTTACAT
1 AACTTACAT
* *
39731814 AATTTACAC
1 AACTTACAT
*
39731823 AACTTACTT
1 AACTTACAT
*
39731832 AACCTACAT
1 AACTTACAT
39731841 AACTTACAT
1 AACTTACAT
39731850 AA--TACA-
1 AACTTACAT
39731856 AAGCTTACAT
1 AA-CTTACAT
* *
39731866 AACTAAAAT
1 AACTTACAT
* *
39731875 AGCTTACAC
1 AACTTACAT
39731884 AACTTACAT
1 AACTTACAT
39731893 AACTTACAT
1 AACTTACAT
*
39731902 AACTTACAG
1 AACTTACAT
* *
39731911 AAGTTATAT
1 AACTTACAT
*
39731920 AATACATA-AT
1 -A-ACTTACAT
39731930 AACTTAC--
1 AACTTACAT
39731937 AACTTACAT
1 AACTTACAT
*
39731946 AACATACAT
1 AACTTACAT
* **
39731955 TACTTTGAT
1 AACTTACAT
39731964 AACTTACAT
1 AACTTACAT
*
39731973 AAGTTACAT
1 AACTTACAT
*
39731982 AA--TACAC
1 AACTTACAT
39731989 AACTTACAT
1 AACTTACAT
** *
39731998 AGTTTACTT
1 AACTTACAT
*
39732007 AA--TACAA
1 AACTTACAT
39732014 AACTTACAT
1 AACTTACAT
39732023 AACTT--AT
1 AACTTACAT
*
39732030 ACACGTACAT
1 A-ACTTACAT
*
39732040 AACCTACAT
1 AACTTACAT
*
39732049 AATTTAC
1 AACTTAC
39732056 TTAATACATA
Statistics
Matches: 181, Mismatches: 45, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
6 2 0.01
7 25 0.14
8 7 0.04
9 136 0.75
10 8 0.04
11 3 0.02
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:39731998 original size:25 final size:25
Alignment explanation
Indices: 39731836--39732028 Score: 131
Period size: 25 Copynumber: 7.4 Consensus size: 25
39731826 TTACTTAACC
39731836 TACATAACTTACATAATACA-AAGCT
1 TACATAACTTACATAATACACAA-CT
* * *
39731861 TACATAACTAAAATAGCTTACACAACT
1 TACATAACTTACATA--ATACACAACT
* *
39731888 TACATAACTTACATAACTTACAGAAGT
1 TACATAACTTACATAA--TACACAACT
*
39731915 TATATAA--TACATAATAACTTACAACT
1 TACATAACTTACATAAT-AC--ACAACT
* * ** *
39731941 TACATAACATACATTACTTTGATAACT
1 TACATAACTTACA-TA-ATACACAACT
*
39731968 TACATAAGTTACATAATACACAACT
1 TACATAACTTACATAATACACAACT
** * *
39731993 TACATAGTTTACTTAATACAAAACT
1 TACATAACTTACATAATACACAACT
39732018 TACATAACTTA
1 TACATAACTTA
39732029 TACACGTACA
Statistics
Matches: 128, Mismatches: 28, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 56 0.44
26 12 0.09
27 48 0.38
28 6 0.05
29 2 0.02
30 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.32
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:39732066 original size:25 final size:25
Alignment explanation
Indices: 39731962--39732066 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
39731952 CATTACTTTG
* *
39731962 ATAACTTACATAAGTTACATAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
39731987 ACAACTTACATAGTTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
39732012 AAAACTTACATAACTTATAC--ACGTAC
1 ATAACTTACATAA-TT-TACTTA-ATAC
*
39732038 ATAACCTACATAATTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
39732063 ATAA
1 ATAA
39732067 ATATATATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
24 3 0.05
25 42 0.65
26 17 0.26
27 3 0.05
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAATTTACTTAATAC
Found at i:39737994 original size:41 final size:42
Alignment explanation
Indices: 39737945--39738023 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
39737935 GTAAAAAAAT
* *
39737945 GCCGCTAAACATCAT-GTTTTTAGCGGCGTTTTTTTTTAAGC
1 GCCGCTAAACAACATGGTCTTTAGCGGCGTTTTTTTTTAAGC
*
39737986 GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTT
1 GCCGCTAAACAACATGGTCTTTAGCGGCGTTTTTTTTT
39738024 GTAAACGCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 13 0.38
42 21 0.62
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (42 bp):
GCCGCTAAACAACATGGTCTTTAGCGGCGTTTTTTTTTAAGC
Found at i:39743957 original size:17 final size:17
Alignment explanation
Indices: 39743935--39743968 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
39743925 CATAGTCCTG
39743935 ATTCAGGCAGTCTATAT
1 ATTCAGGCAGTCTATAT
*
39743952 ATTCAGGTAGTCTATAT
1 ATTCAGGCAGTCTATAT
39743969 TGATATAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (17 bp):
ATTCAGGCAGTCTATAT
Found at i:39747091 original size:45 final size:47
Alignment explanation
Indices: 39747007--39747100 Score: 129
Period size: 45 Copynumber: 2.0 Consensus size: 47
39746997 ATTAGTCAAT
* *
39747007 TATAAATAATTAATAATAAATACTATATAATTTAGTTAAA-A-TTAG
1 TATAAATAATTAATAATAAATACTATATAATTCAATTAAATATTTAG
* * *
39747052 TATAAATAATTTATAGTAAATACTATGTAATTCAATTAAATATTTAG
1 TATAAATAATTAATAATAAATACTATATAATTCAATTAAATATTTAG
39747099 TA
1 TA
39747101 AAGCAAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 35 0.83
46 1 0.02
47 6 0.14
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.41
Consensus pattern (47 bp):
TATAAATAATTAATAATAAATACTATATAATTCAATTAAATATTTAG
Found at i:39748000 original size:25 final size:26
Alignment explanation
Indices: 39747972--39748021 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
39747962 AATTTAATTT
*
39747972 TTATTTTTAAAAATAA-ATAAATAAA
1 TTATTTATAAAAATAACATAAATAAA
* *
39747997 TTATTTATATAAATAACATATATAA
1 TTATTTATAAAAATAACATAAATAA
39748022 TATATCAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
TTATTTATAAAAATAACATAAATAAA
Found at i:39749831 original size:8 final size:8
Alignment explanation
Indices: 39749790--39749837 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
39749780 ATTTACCCCC
39749790 TTTTTTTA
1 TTTTTTTA
39749798 TTCGTTTTTA
1 TT--TTTTTA
**
39749808 TTAATTTA
1 TTTTTTTA
39749816 TTTATTTTA
1 TTT-TTTTA
39749825 TTTTTTTA
1 TTTTTTTA
39749833 TTTTT
1 TTTTT
39749838 GTGGTACTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 18 0.55
9 7 0.21
10 8 0.24
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTTTA
Found at i:39754661 original size:6 final size:6
Alignment explanation
Indices: 39754609--39754642 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
39754599 CAGATTAAAA
39754609 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
39754643 AAGAAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:39754671 original size:20 final size:19
Alignment explanation
Indices: 39754633--39754679 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
39754623 AATCAAAATC
39754633 AAAATCAAAAAAGAAAAGA
1 AAAATCAAAAAAGAAAAGA
39754652 AAAATCAAAAGTAA-AAAAGA
1 AAAATCAAAA--AAGAAAAGA
*
39754672 GAAATCAA
1 AAAATCAA
39754680 TCAAAGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 10 0.40
20 13 0.52
21 2 0.08
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (19 bp):
AAAATCAAAAAAGAAAAGA
Found at i:39756516 original size:87 final size:87
Alignment explanation
Indices: 39756366--39756721 Score: 541
Period size: 87 Copynumber: 4.1 Consensus size: 87
39756356 AGATCAGTGA
* * * * * *
39756366 AGATCCAAAACAAAGCTTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGGTCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
39756431 CTTCCTGCATTAACAGCGAAGT
66 CTTCCTGCATTAACAGCGAAGC
*
39756453 AGATCGAAAACAAAGCCTTGCCTCCATCGGATGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
39756518 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * *
39756540 AGATCGAAAACAAAGCATTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGAAAATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
39756605 CTTCCTGCATTAATAGCAAAGC
66 CTTCCTGCATTAACAGCGAAGC
*
39756627 AGATCGAAAACAAAGTCTTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
** ** *
39756692 CTTCCTGTGTTAACAATGGAGC
66 CTTCCTGCATTAACAGCGAAGC
39756714 AGATCGAA
1 AGATCGAA
39756722 GACGACAAAT
Statistics
Matches: 246, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 246 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGATGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:39756779 original size:44 final size:45
Alignment explanation
Indices: 39756708--39756855 Score: 133
Period size: 44 Copynumber: 3.3 Consensus size: 45
39756698 GTGTTAACAA
*
39756708 TGGAGCAGA-TCGAAGACGACAAATCTTACCTCCCTGAGGTTGCAG
1 TGGAGCAGACT-GAAGAAGACAAATCTTACCTCCCTGAGGTTGCAG
* * * **
39756753 TGGAGCAGACTG-AGAAGACAAGTCTTATCC-CCCAGAAGTCACAG
1 TGGAGCAGACTGAAGAAGACAAATCTTA-CCTCCCTGAGGTTGCAG
* * * * *
39756797 TGGGGCAGACCGAACAAG-CAAATATTATCTCCCTGAGGTTGCAG
1 TGGAGCAGACTGAAGAAGACAAATCTTACCTCCCTGAGGTTGCAG
* *
39756841 TGAAGCAGATTGAAG
1 TGGAGCAGACTGAAG
39756856 TCGATAATCC
Statistics
Matches: 78, Mismatches: 21, Indels: 9
0.72 0.19 0.08
Matches are distributed among these distances:
43 1 0.01
44 60 0.77
45 16 0.21
46 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (45 bp):
TGGAGCAGACTGAAGAAGACAAATCTTACCTCCCTGAGGTTGCAG
Found at i:39758412 original size:79 final size:81
Alignment explanation
Indices: 39758270--39758452 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
39758260 TACTCGTTCA
* *
39758270 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
39758334 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
*
39758350 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGA-TCTAAGTCCG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACT-TAA-CCCG
* *
39758411 GATATGGTCACTTAGCAC
64 GATATAGTAACTTAGCAC
*
39758429 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
39758453 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
77 1 0.01
78 6 0.07
79 55 0.61
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:39758452 original size:40 final size:40
Alignment explanation
Indices: 39758268--39758452 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
39758258 ACTACTCGTT
* *
39758268 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
39758308 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
39758348 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
39758387 CAAATGCCTTC-GGATCTAAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
39758428 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39758453 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:39759771 original size:56 final size:56
Alignment explanation
Indices: 39759704--39759823 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
39759694 TATTAGTTTA
39759704 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
39759760 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
39759816 TTGCCCAT
1 TTGCCCAT
39759824 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:39765764 original size:79 final size:80
Alignment explanation
Indices: 39765622--39765802 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
39765612 TATTCGTTCA
* **
39765622 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
39765687 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
*
39765702 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTC-GGA-TCTAAGTCCG
1 AATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGACT-TAA-CCCG
* *
39765763 GATATGGTCACTTAGCAC
63 GATATAGTAACTTAGCAC
*
39765781 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
39765803 GACATCATTC
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 6 0.07
79 54 0.62
80 26 0.30
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:39765804 original size:40 final size:40
Alignment explanation
Indices: 39765620--39765804 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
39765610 GCTATTCGTT
* *
39765620 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
39765660 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
39765700 CCAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
39765739 CAAATGCCTTC-GGATCTAAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
39765780 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39765805 CATCATTCGA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:39767049 original size:56 final size:56
Alignment explanation
Indices: 39766982--39767101 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
39766972 TATTAGTTTA
39766982 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
39767038 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
39767094 TTGCCCAT
1 TTGCCCAT
39767102 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:39768107 original size:26 final size:26
Alignment explanation
Indices: 39768061--39768110 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
39768051 AAGAGAAGGT
*
39768061 TTTTTTCCTGTTTTCTTTTATTTTTA
1 TTTTTTCCTGTTTTCTATTATTTTTA
*
39768087 TTTTTTGC-GTTTCTCTATTATTTT
1 TTTTTTCCTGTTT-TCTATTATTTT
39768111 CCTTTGCGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.08, C:0.12, G:0.06, T:0.74
Consensus pattern (26 bp):
TTTTTTCCTGTTTTCTATTATTTTTA
Found at i:39768940 original size:26 final size:26
Alignment explanation
Indices: 39768909--39768958 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
39768899 AGAGAAGGTT
*
39768909 TTTTTTCCTGTTT-TCTTTTATTTTTA
1 TTTTTTCC-GTTTCTCTATTATTTTTA
*
39768935 TTTTTTGCGTTTCTCTATTATTTT
1 TTTTTTCCGTTTCTCTATTATTTT
39768959 CCTTTGCGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.08, C:0.12, G:0.06, T:0.74
Consensus pattern (26 bp):
TTTTTTCCGTTTCTCTATTATTTTTA
Found at i:39769189 original size:848 final size:848
Alignment explanation
Indices: 39767554--39769245 Score: 3359
Period size: 848 Copynumber: 2.0 Consensus size: 848
39767544 AGAAGGGCAC
39767554 CTGTAAGAGGCCCAATTTGCCCGGGCCTGATACAGATATTAAAAATCAATAATAAGCAATCCAAT
1 CTGTAAGAGGCCCAATTTGCCCGGGCCTGATACAGATATTAAAAATCAATAATAAGCAATCCAAT
39767619 CCAATAATGTCAGTCCAATTAGAAAAGCCTAATACACACTAGCCCGGATACCCCTGGCCCAAGTC
66 CCAATAATGTCAGTCCAATTAGAAAAGCCTAATACACACTAGCCCGGATACCCCTGGCCCAAGTC
39767684 ACCATAGCCCACTACGTTTTAGGAAACAAAAACCCTAGGGTTTCTAGCTAGCCTCCAGCGCTGCA
131 ACCATAGCCCACTACGTTTTAGGAAACAAAAACCCTAGGGTTTCTAGCTAGCCTCCAGCGCTGCA
39767749 GCCAACAGTAGCCTCCCTCTCATGCGTGCGCGCGAGCCTTCGCACGAGCCACGCCTCCGCATGCC
196 GCCAACAGTAGCCTCCCTCTCATGCGTGCGCGCGAGCCTTCGCACGAGCCACGCCTCCGCATGCC
39767814 ACATCCGCACCACCGTACGGCCTCGCACCTGCAAAAACCTGCAGCAAACACAACAAGCGAACAGA
261 ACATCCGCACCACCGTACGGCCTCGCACCTGCAAAAACCTGCAGCAAACACAACAAGCGAACAGA
39767879 GGCAAAAAAAGCAAAGAATAACAGTAAAAAAGGACGAATATATGAAAAAAATGAGATTTTTGTTT
326 GGCAAAAAAAGCAAAGAATAACAGTAAAAAAGGACGAATATATGAAAAAAATGAGATTTTTGTTT
39767944 TATTTTCTTTTATTTTCAGCTATATGAGGCCGATTCTAATATTGTAAGAGGGGATCCCCTTTTTT
391 TATTTTCTTTTATTTTCAGCTATATGAGGCCGATTCTAATATTGTAAGAGGGGATCCCCTTTTTT
39768009 TTATGCTTACTGTATCAAAGAAAAAACAATATCAATACAAAGAAGAGAAGGTTTTTTTCCTGTTT
456 TTATGCTTACTGTATCAAAGAAAAAACAATATCAATACAAAGAAGAGAAGGTTTTTTTCCTGTTT
39768074 TCTTTTATTTTTATTTTTTGCGTTTCTCTATTATTTTCCTTTGCGGTTTTCTTGATTCTTTCTAT
521 TCTTTTATTTTTATTTTTTGCGTTTCTCTATTATTTTCCTTTGCGGTTTTCTTGATTCTTTCTAT
39768139 TTTCTACACGAAAAATAGAAGATAGAAGAGTTTACCTTCGTGCTTTGCCATGAAATCCCTGCCTG
586 TTTCTACACGAAAAATAGAAGATAGAAGAGTTTACCTTCGTGCTTTGCCATGAAATCCCTGCCTG
39768204 CTTTGCCATGATCGGGGTTTGGAAGGGGTTTCAAGGCTGAAAATCGGCCGAGCGCAAGAACGGCG
651 CTTTGCCATGATCGGGGTTTGGAAGGGGTTTCAAGGCTGAAAATCGGCCGAGCGCAAGAACGGCG
39768269 AAAGGGGGGAGATTTAGCTTTTTTTTCTGGTAGTTTAAGGGGGCTTTGAGGCATTTTGCTTTTAG
716 AAAGGGGGGAGATTTAGCTTTTTTTTCTGGTAGTTTAAGGGGGCTTTGAGGCATTTTGCTTTTAG
39768334 GGTTTTGAAGGGCACTTATATTGGGGATAAAACGGCACCATTTAGAGCTAGATCAGTAGCTCTAG
781 GGTTTTGAAGGGCACTTATATTGGGGATAAAACGGCACCATTTAGAGCTAGATCAGTAGCTCTAG
39768399 CTA
846 CTA
39768402 CTGTAAGAGGCCCAATTTGCCCGGGCCTGATACAGATATTAAAAATCAATAATAAGCAATCCAAT
1 CTGTAAGAGGCCCAATTTGCCCGGGCCTGATACAGATATTAAAAATCAATAATAAGCAATCCAAT
39768467 CCAATAATGTCAGTCCAATTAGAAAAGCCTAATACACACTAGCCCGGATACCCCTGGCCCAAGTC
66 CCAATAATGTCAGTCCAATTAGAAAAGCCTAATACACACTAGCCCGGATACCCCTGGCCCAAGTC
39768532 ACCATAGCCCACTACGTTTTAGGAAACAAAAACCCTAGGGTTTCTAGCTAGCCTCCAGCGCTGCA
131 ACCATAGCCCACTACGTTTTAGGAAACAAAAACCCTAGGGTTTCTAGCTAGCCTCCAGCGCTGCA
39768597 GCCAACAGTAGCCTCCCTCTCATGCGTGCGCGCGAGCCTTCGCACGAGCCACGCCTCCGCATGCC
196 GCCAACAGTAGCCTCCCTCTCATGCGTGCGCGCGAGCCTTCGCACGAGCCACGCCTCCGCATGCC
*
39768662 ACGTCCGCACCACCGTACGGCCTCGCACCTGCAAAAACCTGCAGCAAACACAACAAGCGAACAGA
261 ACATCCGCACCACCGTACGGCCTCGCACCTGCAAAAACCTGCAGCAAACACAACAAGCGAACAGA
39768727 GGCAAAAAAAGCAAAGAATAACAGTAAAAAAGGACGAATATATGAAAAAAATGAGATTTTTGTTT
326 GGCAAAAAAAGCAAAGAATAACAGTAAAAAAGGACGAATATATGAAAAAAATGAGATTTTTGTTT
39768792 TATTTTCTTTTATTTTCAGCTATATGAGGCCGATTCTAATATTGTAAGAGGGGATCCCC-TTTTT
391 TATTTTCTTTTATTTTCAGCTATATGAGGCCGATTCTAATATTGTAAGAGGGGATCCCCTTTTTT
39768856 TTATGCTTACTGTATCAAAGAAAAAACAATATCAATACAAAGAAGAGAAGGTTTTTTTTCCTGTT
456 TTATGCTTACTGTATCAAAGAAAAAACAATATCAATACAAAGAAGAGAAGG-TTTTTTTCCTGTT
39768921 TTCTTTTATTTTTATTTTTTGCGTTTCTCTATTATTTTCCTTTGCGGTTTTCTTGATTCTTTCTA
520 TTCTTTTATTTTTATTTTTTGCGTTTCTCTATTATTTTCCTTTGCGGTTTTCTTGATTCTTTCTA
39768986 TTTTCTACACGAAAAATAGAAGATAGAAGAGTTTACCTTCGTGCTTTGCCATGAAATCCCTGCCT
585 TTTTCTACACGAAAAATAGAAGATAGAAGAGTTTACCTTCGTGCTTTGCCATGAAATCCCTGCCT
39769051 GCTTTGCCATGATCGGGGTTTGGAAGGGGTTTCAAGGCTGAAAATCGGCCGAGCGCAAGAACGGC
650 GCTTTGCCATGATCGGGGTTTGGAAGGGGTTTCAAGGCTGAAAATCGGCCGAGCGCAAGAACGGC
39769116 GAAAGGGGGGAGATTTAGCTTTTTTTTCTGGTAGTTTAAGGGGGCTTTGAGGCATTTTGCTTTTA
715 GAAAGGGGGGAGATTTAGCTTTTTTTTCTGGTAGTTTAAGGGGGCTTTGAGGCATTTTGCTTTTA
39769181 GGGTTTTGAAGGGCACTTATATTGGGGATAAAACGGCACCATTTAGAGCTAGATCAGTAGCTCTA
780 GGGTTTTGAAGGGCACTTATATTGGGGATAAAACGGCACCATTTAGAGCTAGATCAGTAGCTCTA
39769246 AAACGGCACC
Statistics
Matches: 842, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
847 56 0.07
848 786 0.93
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (848 bp):
CTGTAAGAGGCCCAATTTGCCCGGGCCTGATACAGATATTAAAAATCAATAATAAGCAATCCAAT
CCAATAATGTCAGTCCAATTAGAAAAGCCTAATACACACTAGCCCGGATACCCCTGGCCCAAGTC
ACCATAGCCCACTACGTTTTAGGAAACAAAAACCCTAGGGTTTCTAGCTAGCCTCCAGCGCTGCA
GCCAACAGTAGCCTCCCTCTCATGCGTGCGCGCGAGCCTTCGCACGAGCCACGCCTCCGCATGCC
ACATCCGCACCACCGTACGGCCTCGCACCTGCAAAAACCTGCAGCAAACACAACAAGCGAACAGA
GGCAAAAAAAGCAAAGAATAACAGTAAAAAAGGACGAATATATGAAAAAAATGAGATTTTTGTTT
TATTTTCTTTTATTTTCAGCTATATGAGGCCGATTCTAATATTGTAAGAGGGGATCCCCTTTTTT
TTATGCTTACTGTATCAAAGAAAAAACAATATCAATACAAAGAAGAGAAGGTTTTTTTCCTGTTT
TCTTTTATTTTTATTTTTTGCGTTTCTCTATTATTTTCCTTTGCGGTTTTCTTGATTCTTTCTAT
TTTCTACACGAAAAATAGAAGATAGAAGAGTTTACCTTCGTGCTTTGCCATGAAATCCCTGCCTG
CTTTGCCATGATCGGGGTTTGGAAGGGGTTTCAAGGCTGAAAATCGGCCGAGCGCAAGAACGGCG
AAAGGGGGGAGATTTAGCTTTTTTTTCTGGTAGTTTAAGGGGGCTTTGAGGCATTTTGCTTTTAG
GGTTTTGAAGGGCACTTATATTGGGGATAAAACGGCACCATTTAGAGCTAGATCAGTAGCTCTAG
CTA
Found at i:39779142 original size:20 final size:21
Alignment explanation
Indices: 39779091--39779152 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 21
39779081 TTTATTAAAA
* *
39779091 ATTTTAAAAACT-ATAACAAGTT
1 ATTTTAAAAA-TAATAA-AAATC
* *
39779113 ATTTTTAAAA-AATTAAAATC
1 ATTTTAAAAATAATAAAAATC
39779133 ATTTTAAAAATAATAAAAAT
1 ATTTTAAAAATAATAAAAAT
39779153 TATATTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 12 0.38
21 11 0.34
22 9 0.28
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
ATTTTAAAAATAATAAAAATC
Found at i:39779365 original size:3 final size:3
Alignment explanation
Indices: 39779359--39779383 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
39779349 ATAATAATAA
39779359 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
39779384 TGAACTCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:39784039 original size:32 final size:32
Alignment explanation
Indices: 39784003--39784102 Score: 104
Period size: 32 Copynumber: 3.3 Consensus size: 32
39783993 TAAATATATA
39784003 AAATTCTAAGAAATAAAATTTAATGAAAAACT
1 AAATTCTAAGAAATAAAATTTAATGAAAAACT
* * * * *
39784035 AAATTCT---AATTTAATTTTAA--ATATA-T
1 AAATTCTAAGAAATAAAATTTAATGAAAAACT
39784061 AAAATTCTAAGAAATAAAATTTAATGAAAAACT
1 -AAATTCTAAGAAATAAAATTTAATGAAAAACT
39784094 AAATTCTAA
1 AAATTCTAA
39784103 TTTAATTTTC
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
26 1 0.02
27 10 0.20
29 10 0.20
30 10 0.20
32 19 0.37
33 1 0.02
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (32 bp):
AAATTCTAAGAAATAAAATTTAATGAAAAACT
Found at i:39784061 original size:59 final size:59
Alignment explanation
Indices: 39783986--39784111 Score: 252
Period size: 59 Copynumber: 2.1 Consensus size: 59
39783976 AAAATTATTC
39783986 TTAATTTTAAATATATAAAATTCTAAGAAATAAAATTTAATGAAAAACTAAATTCTAAT
1 TTAATTTTAAATATATAAAATTCTAAGAAATAAAATTTAATGAAAAACTAAATTCTAAT
39784045 TTAATTTTAAATATATAAAATTCTAAGAAATAAAATTTAATGAAAAACTAAATTCTAAT
1 TTAATTTTAAATATATAAAATTCTAAGAAATAAAATTTAATGAAAAACTAAATTCTAAT
39784104 TTAATTTT
1 TTAATTTT
39784112 CCTTATTTAC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (59 bp):
TTAATTTTAAATATATAAAATTCTAAGAAATAAAATTTAATGAAAAACTAAATTCTAAT
Found at i:39785521 original size:8 final size:8
Alignment explanation
Indices: 39785510--39785608 Score: 89
Period size: 7 Copynumber: 12.0 Consensus size: 8
39785500 AAAATAATTT
39785510 TTTTTAAA
1 TTTTTAAA
39785518 TTTTTTAATAA
1 -TTTTT-A-AA
*
39785529 TTTTAATAA
1 TTTTTA-AA
39785538 TTTTTAAA
1 TTTTTAAA
39785546 -TTTTAAA
1 TTTTTAAA
39785553 -TTTTAAA
1 TTTTTAAA
39785560 TTTTTAAA
1 TTTTTAAA
39785568 -TTTTAAA
1 TTTTTAAA
39785575 -TTTTAAA
1 TTTTTAAA
*
39785582 TTTTTTTGAAT
1 --TTTTT-AAA
39785593 TTTTTAAA
1 TTTTTAAA
39785601 TTTTTAAA
1 TTTTTAAA
39785609 AAATTAATTA
Statistics
Matches: 79, Mismatches: 4, Indels: 15
0.81 0.04 0.15
Matches are distributed among these distances:
7 28 0.35
8 19 0.24
9 19 0.24
10 9 0.11
11 4 0.05
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (8 bp):
TTTTTAAA
Found at i:39785564 original size:22 final size:22
Alignment explanation
Indices: 39785527--39785586 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 22
39785517 ATTTTTTAAT
39785527 AATTTTAATAATTTTTAAATTTTA
1 AATTTT-A-AATTTTTAAATTTTA
39785551 AATTTTAAATTTTTAAATTTTA
1 AATTTTAAATTTTTAAATTTTA
39785573 AATTTTAAATTTTT
1 AATTTTAAATTTTT
39785587 TTGAATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 29 0.81
23 1 0.03
24 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AATTTTAAATTTTTAAATTTTA
Found at i:39786061 original size:3 final size:3
Alignment explanation
Indices: 39786053--39786121 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
39786043 TTAAAACCCT
39786053 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
39786101 AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA
39786122 GGAGGAGGAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:39791416 original size:6 final size:6
Alignment explanation
Indices: 39791407--39791441 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
39791397 GATTTTCTCC
39791407 AAAATG AAAATG AAAATG AAAATGG AGAAATG AAA
1 AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAA
39791442 TAATTTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:39791470 original size:63 final size:64
Alignment explanation
Indices: 39791359--39791485 Score: 177
Period size: 63 Copynumber: 2.0 Consensus size: 64
39791349 ATAGAAATGG
* *
39791359 TGAAAATGAAGAAATGAGAAACATATGGAAATGATTATGATTTTCTCCAAAATGAAAATGAAAA
1 TGAAAATGAAGAAATGAGAAACATATAGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAA
* * * *
39791423 TGAAAATGGAGAAATGA-AATA-ATTTAGAAATGAATGTGGTTTTCTCCAAAATGAAAATGAAAA
1 TGAAAATGAAGAAATGAGAA-ACATATAGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAA
39791486 AGACTTGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 39 0.70
64 17 0.30
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (64 bp):
TGAAAATGAAGAAATGAGAAACATATAGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAA
Found at i:39794450 original size:6 final size:6
Alignment explanation
Indices: 39794439--39794486 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
39794429 GTTAGCGAAC
39794439 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
39794487 TTATGTTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATAT
Found at i:39795368 original size:17 final size:16
Alignment explanation
Indices: 39795331--39795369 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
39795321 AATAAGCAAT
39795331 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
39795346 TAAAATTAAATTGGAAA
1 T-AAATTAAATTGGAAA
39795363 GTAAATT
1 -TAAATT
39795370 TGGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 16 0.76
18 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:39803769 original size:82 final size:82
Alignment explanation
Indices: 39803606--39803876 Score: 384
Period size: 82 Copynumber: 3.3 Consensus size: 82
39803596 CCGGCAGGAT
* * * * * *
39803606 TAAATCCCGAAATAGAACTATTTAATTAAATCTTGTTTGGAAA-AAAATCAAAATCGAATAAAAT
1 TAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATGGAATAAAAT
* *
39803670 CTCTTAAATGGCAGGAA
66 CTGTTAAATGGCGGGAA
* * *
39803687 TAAATCACGAAACAGAATTATTCAATTAATTATCGTGTGGAAACAAAATCAAAATGGAATAAAAT
1 TAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATGGAATAAAAT
*
39803752 CTGTTGAATGGCGGGAA
66 CTGTTAAATGGCGGGAA
*
39803769 TAAATCCTGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATGGAATAAAAT
1 TAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATGGAATAAAAT
* *
39803834 CTGTTCAATGGCGAGAA
66 CTGTTAAATGGCGGGAA
*
39803851 TAAA-CCCGAAACAGAATTGTTCAATT
1 TAAATCCCGAAACAGAATTATTCAATT
39803877 TTAATTTTTT
Statistics
Matches: 169, Mismatches: 20, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
81 55 0.33
82 114 0.67
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (82 bp):
TAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATGGAATAAAAT
CTGTTAAATGGCGGGAA
Found at i:39804096 original size:15 final size:16
Alignment explanation
Indices: 39804070--39804099 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39804060 TTTTTTTATG
39804070 TAAAAAACATCAAATT
1 TAAAAAACATCAAATT
39804086 TAAAAAA-ATCAAAT
1 TAAAAAACATCAAAT
39804100 AAATATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAAAAACATCAAATT
Found at i:39807386 original size:9 final size:9
Alignment explanation
Indices: 39807374--39807430 Score: 60
Period size: 10 Copynumber: 5.8 Consensus size: 9
39807364 TAAAAATTTT
39807374 AAAAATATA
1 AAAAATATA
39807383 AAAAATATA
1 AAAAATATA
*
39807392 TAAAATTTATA
1 -AAAA-ATATA
39807403 ACAAAATATAA
1 A-AAAATAT-A
39807414 AAAAACTATA
1 AAAAA-TATA
39807424 AAAAATA
1 AAAAATA
39807431 ACAATACCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 11 0.27
10 18 0.44
11 12 0.29
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAAATATA
Found at i:39807519 original size:20 final size:20
Alignment explanation
Indices: 39807494--39807544 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
39807484 TATAACTTCT
*
39807494 TTTATAAATTTTGTTTATAA
1 TTTATAAATTTTGTTAATAA
*
39807514 TTTATATGA-TTT-TTAATAA
1 TTTATA-AATTTTGTTAATAA
39807533 TTT-TAAATTTTG
1 TTTATAAATTTTG
39807545 AAAGATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 7
0.71 0.09 0.20
Matches are distributed among these distances:
17 1 0.04
18 5 0.20
19 9 0.36
20 9 0.36
21 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (20 bp):
TTTATAAATTTTGTTAATAA
Found at i:39809021 original size:18 final size:19
Alignment explanation
Indices: 39808994--39809029 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
39808984 AATAGTTACT
*
39808994 AAAAATTTATTT-ATAAAC
1 AAAAAATTATTTAATAAAC
39809012 AAAAAATTATTTAATAAA
1 AAAAAATTATTTAATAAA
39809030 AACTATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAAATTATTTAATAAAC
Found at i:39814207 original size:12 final size:13
Alignment explanation
Indices: 39814190--39814218 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
39814180 AGCATTAAAA
39814190 TCTTTACTTTCT-
1 TCTTTACTTTCTC
39814202 TCTTTACTTTCTC
1 TCTTTACTTTCTC
39814215 TCTT
1 TCTT
39814219 ACTCGTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.66
Consensus pattern (13 bp):
TCTTTACTTTCTC
Found at i:39814554 original size:50 final size:50
Alignment explanation
Indices: 39814428--39814725 Score: 256
Period size: 50 Copynumber: 5.9 Consensus size: 50
39814418 TGAATATAAC
* * * ** * * *
39814428 GTGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAG
* * * * * **
39814477 CTGCCAATGTCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATAG
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAG
* * ** * * *
39814527 GTGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTTATCTCG
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAG
** * * * *
39814577 GTGCCAGCGCCATGTTCCATACATGGTCTTACATGGGACCTCTCATCTTG
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAG
* *
39814627 GTGCCAACGCCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-G
*
39814683 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
39814726 TTACCCAAAT
Statistics
Matches: 199, Mismatches: 43, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
49 36 0.18
50 121 0.61
53 1 0.01
56 41 0.21
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAG
Found at i:39821319 original size:84 final size:86
Alignment explanation
Indices: 39820972--39821589 Score: 230
Period size: 84 Copynumber: 7.3 Consensus size: 86
39820962 AACTGCTTCC
* * * * **
39820972 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTACTGCTT-AGGGAGATAAG
1 CTGCAACTTCAAGGAGATAAGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAG
* *
39821036 ACAT-GATGCGATCTGCTCTA
66 ACTTGGATGCGATCTGTTCTA
* ** * * *
39821056 CTGCAACTTC-AGAGAGATAAGATCTGTGGTT-TT-AATCCGCTCCACTGCAACTTCAAGGAGAT
1 CTGCAACTTCAAG-GAGATAAGAT-TG-GTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGAT
* * * *
39821118 AGGA-TTGGTTTC-TTCTG-TCTA
63 AAGACTTGGATGCGATCTGTTCTA
* * * * * * * * * * *
39821139 CTCCACACTACTGAGGGAGATAAGACTGGATGCGATCT-TC-ACT--ACTGCAAGTTCAGAGAGA
1 CTGCA-ACT--TCAAGGAGATAAGATTGGTTTC-TTCTGTCTGCTCCACTACAACTTCAGGGAGA
* ***
39821200 TAAGATCTGTGGTTTTAATCTGCTTC-A
62 TAAGA-CT-TGGATGCGATCTG-TTCTA
* * *
39821227 CTGTAACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTACTT-AGGGAGATAAG
1 CTGCAACTTCAAGGAGATAAGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAG
39821291 ACTT-GATGCGATCTGTTCTA
66 ACTTGGATGCGATCTGTTCTA
* ** * *
39821311 CTGCAACTTC-AGAGAGATAAGATCTGTGGTT-TT-AATCCGCTCCACTGCAACTTCAGGGAGAT
1 CTGCAACTTCAAG-GAGATAAGAT-TG-GTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGAT
* * * * *
39821373 AGGA-TTGGTTTC-TTCT-TTCTG
63 AAGACTTGGATGCGATCTGTTCTA
* * * * * ** * *
39821394 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTG-CT-CT--ACTGCAACTTCAGAGAG
1 CTGCA--ACT--TCAAGGAGATAAGA-TTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAG
* *** * *
39821455 ATAAGATCTGTGGTTTTAATCTGCTCCA
61 ATAAGA-CT-TGGATGCGATCTGTTCTA
* * * * * **
39821483 CTGTAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCATTACTGCTT-AGGGAGATAAG
1 CTGCAACTTCAAGGAGATAAGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAG
*
39821547 ACTT-GATGCGATCTGCTCTA
66 ACTTGGATGCGATCTGTTCTA
39821567 CTGCAACTTC-AGAGAGATAAGAT
1 CTGCAACTTCAAG-GAGATAAGAT
39821590 CTATGGTTTT
Statistics
Matches: 389, Mismatches: 99, Indels: 92
0.67 0.17 0.16
Matches are distributed among these distances:
83 42 0.11
84 150 0.39
85 78 0.20
86 37 0.10
87 53 0.14
88 22 0.06
89 7 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (86 bp):
CTGCAACTTCAAGGAGATAAGATTGGTTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAG
ACTTGGATGCGATCTGTTCTA
Found at i:39821346 original size:128 final size:128
Alignment explanation
Indices: 39820972--39821808 Score: 1381
Period size: 128 Copynumber: 6.6 Consensus size: 128
39820962 AACTGCTTCC
* *
39820972 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTACTGCTTAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGA
*
39821037 CATGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
66 CTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
* * * *
39821100 CTGCAACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTACTCCAC-ACTACTGAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGA
* * * * * *
39821164 CTGGATGCGATCTTCACTACTGCAAGTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTTCA
66 CTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
* * *
39821227 CTGTAACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTACTTAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGA
*
39821292 CTTGATGCGATCTGTTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
66 CTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
*
39821355 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTTTCTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGA
* *
39821420 CTTGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCA
66 CTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
* * *
39821483 CTGTAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCATTACTGCTTAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGA
*
39821548 CTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCA
66 CTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
* *
39821611 CTGCAACTTTAGGGAGATA-GATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGA
* * *
39821675 CTTGATGCGATCTGCTCTACTGCAACTTCAGAGGGATAAGATCTGTGCTTTTAATCCGCACCA
66 CTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
* *
39821738 CTGCAACTTCAGGGAGATGGGATTGGTTTCTTCTGTCTTCTCCACTACTGCTTAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGA
39821803 CTTGAT
66 CTTGAT
39821809 ATGATGGCTT
Statistics
Matches: 661, Mismatches: 46, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
127 235 0.36
128 426 0.64
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (128 bp):
CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGA
CTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
Found at i:39821679 original size:383 final size:383
Alignment explanation
Indices: 39820972--39821813 Score: 1380
Period size: 383 Copynumber: 2.2 Consensus size: 383
39820962 AACTGCTTCC
39820972 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTACTGCTTAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTACTGCTTAGGGAGATAAGA
* *
39821037 CATGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACT
66 CTTGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACT
39821102 GCAACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTACTCCACACTACTGAGGGAGATAAGACTG
131 GCAACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTACTCCACACTACTGAGGGAGATAAGACTG
* * * * * *
39821167 GATGCGATCTTCACTACTGCAAGTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTTCACTGTA
196 GATGCGATCTGCACTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCA
39821232 ACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGA
261 ACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGA
* * *
39821297 TGCGATCTGTTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
326 TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGCTTTTAATCCGCACCA
* *
39821355 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTTTCTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTACTGCTTAGGGAGATAAGA
*
39821420 CTTGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACT
66 CTTGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACT
* * * * * * *
39821485 GTAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCATTACTGCTTAGGGAGATAAGACT
131 GCAACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTACTCCA-CACTACTGAGGGAGATAAGACT
* *
39821550 TGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGC
195 GGATGCGATCTGCACTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGC
* * * *
39821615 AACTTTAGGGAGATA-GATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTG
260 AACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTACTTAGGGAGATAAGACTTG
*
39821679 ATGCGATCTGCTCTACTGCAACTTCAGAGGGATAAGATCTGTGCTTTTAATCCGCACCA
325 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGCTTTTAATCCGCACCA
* * *
39821738 CTGCAACTTCAGGGAGATGGGATTGGTTTCTTCTGTCTTCTCCACTACTGCTTAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTACTGCTTAGGGAGATAAGA
*
39821803 CTTGATATGAT
66 CTTGATGTGAT
39821814 GGCTTCAATC
Statistics
Matches: 426, Mismatches: 32, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
383 337 0.79
384 89 0.21
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (383 bp):
CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTACTGCTTAGGGAGATAAGA
CTTGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACT
GCAACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTACTCCACACTACTGAGGGAGATAAGACTG
GATGCGATCTGCACTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCA
ACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGA
TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGCTTTTAATCCGCACCA
Found at i:39821789 original size:255 final size:256
Alignment explanation
Indices: 39820964--39821808 Score: 1383
Period size: 255 Copynumber: 3.3 Consensus size: 256
39820954 TCCACTGCAA
* *
39820964 CTGCTTCC-CTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTACTGCTTAGG
1 CTGC-TCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGG
*
39821028 GAGATAAGACATGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
65 GAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
* * * * *
39821093 CGCTCCACTGCAACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTACTCCAC-ACTACTGAGGGA
130 CGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGA
* * * *
39821157 GATAAGACTGGATGCGATCTTCACTACTGCAAGTTCAGAGAGATAAGATCTGTGGTTTTAAT
195 GATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAT
* * * *
39821219 CTGCTTCACTGTAACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTACTTAGGG
1 CTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGG
*
39821284 AGATAAGACTTGATGCGATCTGTTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
66 AGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
39821349 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTT-TCTGCTCCACTACTGCTTAGGGA
131 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT-TTGTCTGCTCCACTACTGCTTAGGGA
*
39821413 GATAAGACTTGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAT
195 GATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAT
* * *
39821475 CTGCTCCACTGTAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCATTACTGCTTAGGG
1 CTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGG
*
39821540 AGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCC
66 AGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
*
39821605 GCTCCACTGCAACTTTAGGGAGATA-GATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAG
131 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAG
* *
39821669 ATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGGGATAAGATCTGTGCTTTTAAT
196 ATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAT
* * * *
39821730 CCGCACCACTGCAACTTCAGGGAGATGGGATTGGTTTCTTCTGTCTTCTCCACTACTGCTTAGGG
1 CTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGG
39821795 AGATAAGACTTGAT
66 AGATAAGACTTGAT
39821809 ATGATGGCTT
Statistics
Matches: 550, Mismatches: 36, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
254 4 0.01
255 331 0.60
256 215 0.39
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (256 bp):
CTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGG
AGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAG
ATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAT
Found at i:39822156 original size:24 final size:24
Alignment explanation
Indices: 39822124--39822179 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
39822114 GATTGCCCCT
*
39822124 ACTGTAATCTTCAAATTTCAATCC
1 ACTGTAATCTTCAAAGTTCAATCC
* * *
39822148 ACTGTAATCTTCAACGTTCAGTCT
1 ACTGTAATCTTCAAAGTTCAATCC
39822172 ACTGTAAT
1 ACTGTAAT
39822180 TTTGAGACAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (24 bp):
ACTGTAATCTTCAAAGTTCAATCC
Found at i:39823130 original size:6 final size:6
Alignment explanation
Indices: 39823116--39823179 Score: 59
Period size: 6 Copynumber: 11.5 Consensus size: 6
39823106 CACCTTGGCC
*
39823116 TTTCTT TTT-TCT TTTC-T TTT-TT TTTCTT TTTC-- CTTCTT TTTCTT
1 TTTCTT TTTCT-T TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
*
39823160 TTTCTT TTT-TT TTTGTT TTT
1 TTTCTT TTTCTT TTTCTT TTT
39823180 TTGAACATTC
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
4 3 0.06
5 14 0.29
6 32 0.65
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:39823139 original size:16 final size:17
Alignment explanation
Indices: 39823115--39823172 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 17
39823105 TCACCTTGGC
*
39823115 CTTTCTTTTT-TCTTTT
1 CTTTTTTTTTCTCTTTT
39823131 CTTTTTTTTTCT-TTTT
1 CTTTTTTTTTCTCTTTT
* *
39823147 CCTTCTTTTTCT-TTTT
1 CTTTTTTTTTCTCTTTT
39823163 CTTTTTTTTT
1 CTTTTTTTTT
39823173 TGTTTTTTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
16 35 0.97
17 1 0.03
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
CTTTTTTTTTCTCTTTT
Found at i:39823140 original size:10 final size:10
Alignment explanation
Indices: 39823116--39823181 Score: 62
Period size: 10 Copynumber: 6.2 Consensus size: 10
39823106 CACCTTGGCC
39823116 TTTCTTTTTTCT
1 TTTC-TTTTT-T
39823128 TTTCTTTTTT
1 TTTCTTTTTT
*
39823138 TTTCTTTTTC
1 TTTCTTTTTT
*
39823148 CTTCTTTTTCTT
1 TTTC-TTTT-TT
39823160 TTTCTTTTTT
1 TTTCTTTTTT
39823170 TTT-TGTTTTT
1 TTTCT-TTTTT
39823180 TT
1 TT
39823182 GAACATTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
9 1 0.02
10 25 0.53
11 13 0.28
12 8 0.17
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.85
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:39823192 original size:38 final size:38
Alignment explanation
Indices: 39823116--39823192 Score: 88
Period size: 37 Copynumber: 2.0 Consensus size: 38
39823106 CACCTTGGCC
* *
39823116 TTTCTTTTTTCTTTTCTTTTTTTTTCTTTTTCCTTCTT
1 TTTCTTTTTTCTTTTCTTTTTTTTTCTTTTACATTCTT
39823154 TTTC-TTTTTCTTTT-TTTTTTGTTT-TTTTGAACATTCTT
1 TTTCTTTTTTCTTTTCTTTTTT-TTTCTTTT--ACATTCTT
39823192 T
1 T
39823193 GATTGAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
36 10 0.29
37 13 0.38
38 11 0.32
ACGTcount: A:0.04, C:0.14, G:0.03, T:0.79
Consensus pattern (38 bp):
TTTCTTTTTTCTTTTCTTTTTTTTTCTTTTACATTCTT
Found at i:39828727 original size:43 final size:41
Alignment explanation
Indices: 39828677--39828759 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 41
39828667 AGTAAAATGA
*
39828677 ATAAAATTATAAAAATATAAAAGATATATATGTGTGTATATAC
1 ATAAAATTATAAAAATATAAAA-A-ATATATGTATGTATATAC
** *
39828720 ATAAAATTATGGAAATATGAAAAATATATGTATGTATATA
1 ATAAAATTATAAAAATATAAAAAATATATGTATGTATATA
39828760 TTTTAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 16 0.44
42 1 0.03
43 19 0.53
ACGTcount: A:0.53, C:0.01, G:0.11, T:0.35
Consensus pattern (41 bp):
ATAAAATTATAAAAATATAAAAAATATATGTATGTATATAC
Found at i:39828983 original size:31 final size:31
Alignment explanation
Indices: 39828948--39829027 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
39828938 AAGTTATAAA
* **
39828948 ATATAAAGAATGTATAAGTATATATATGTAT
1 ATATAAACAATGTATAAAAATATATATGTAT
* * *
39828979 ATATAGACAATGTATAAAAATGTATATGTGT
1 ATATAAACAATGTATAAAAATATATATGTAT
*
39829010 ATATATAC-AT-TATAAAAA
1 ATATAAACAATGTATAAAAA
39829028 CACATGTATG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 8 0.19
30 2 0.05
31 32 0.76
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (31 bp):
ATATAAACAATGTATAAAAATATATATGTAT
Found at i:39840866 original size:40 final size:39
Alignment explanation
Indices: 39840812--39840890 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
39840802 AATAATTTTA
*
39840812 AAATCAAGTGAAAATGATTTCAAC-CAGGTCAAAATGATTT
1 AAATCAAGTGAAAATCATTTCAACACA--TCAAAATGATTT
* *
39840852 AAATCAAGTTAAAATCATTTTAACACATCAAAATGATTT
1 AAATCAAGTGAAAATCATTTCAACACATCAAAATGATTT
39840891 TCAAAAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
39 12 0.34
40 21 0.60
41 2 0.06
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (39 bp):
AAATCAAGTGAAAATCATTTCAACACATCAAAATGATTT
Found at i:39840890 original size:19 final size:20
Alignment explanation
Indices: 39840822--39840891 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
39840812 AAATCAAGTG
*
39840822 AAAATGATTTCAAC-CAGGTC
1 AAAATGATTTTAACACA-GTC
* *
39840842 AAAATGATTTAAATCA-AGTT
1 AAAATGATTTTAA-CACAGTC
*
39840862 AAAATCATTTTAACACA-TC
1 AAAATGATTTTAACACAGTC
39840881 AAAATGATTTT
1 AAAATGATTTT
39840892 CAAAAAAGTC
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 13 0.32
20 26 0.63
21 2 0.05
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (20 bp):
AAAATGATTTTAACACAGTC
Found at i:39840959 original size:20 final size:21
Alignment explanation
Indices: 39840921--39840971 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
39840911 CCAAGGCAAA
*
39840921 AAGTATCGATACCTTTTGGCC
1 AAGTATCGATACATTTTGGCC
39840942 AAGTATCGATA-ATTTTGG--
1 AAGTATCGATACATTTTGGCC
*
39840960 AATTATCGATAC
1 AAGTATCGATAC
39840972 CCTTAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 10 0.37
20 6 0.22
21 11 0.41
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (21 bp):
AAGTATCGATACATTTTGGCC
Found at i:39844965 original size:19 final size:19
Alignment explanation
Indices: 39844941--39844978 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
39844931 AGTTTAGGCC
39844941 AGATTCCGGAGGTCACATT
1 AGATTCCGGAGGTCACATT
*
39844960 AGATTCTGGAGGTCACATT
1 AGATTCCGGAGGTCACATT
39844979 GATCACCAAA
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:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (19 bp):
AGATTCCGGAGGTCACATT
Found at i:39854417 original size:20 final size:20
Alignment explanation
Indices: 39854392--39854453 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
39854382 TTTTGATGTG
*
39854392 TTAAAATGATTTTAACTTGA
1 TTAAAATCATTTTAACTTGA
* *
39854412 TTAAAATCATTTTGACTTGG
1 TTAAAATCATTTTAACTTGA
* *
39854432 TTACAATCATTTTCACTTGA
1 TTAAAATCATTTTAACTTGA
39854452 TT
1 TT
39854454 GGAAAATTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.47
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTGA
Found at i:39854426 original size:39 final size:40
Alignment explanation
Indices: 39854378--39854453 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
39854368 GCCAAAAGGT
*
39854378 ATCATTTTGA--TGTGTTAAAATGATTTTAACTTGATTAAA
1 ATCATTTTGACTTG-GTTAAAATCATTTTAACTTGATTAAA
* *
39854417 ATCATTTTGACTTGGTTACAATCATTTTCACTTGATT
1 ATCATTTTGACTTGGTTAAAATCATTTTAACTTGATT
39854454 GGAAAATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 10 0.31
40 20 0.62
41 2 0.06
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (40 bp):
ATCATTTTGACTTGGTTAAAATCATTTTAACTTGATTAAA
Found at i:39859058 original size:37 final size:38
Alignment explanation
Indices: 39858973--39859061 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 38
39858963 AAATAAAATG
* ** *
39858973 AATAAAGATCAAAGAAAAGTTTGCTCAAATTCTGGAAA
1 AATAAAGAGCAAAGAAAAGAGTGCTCAAATTCTGCAAA
39859011 AA-ATAAGAGCAAAGAAAAGAGTGCTCAAATTCT-CAAA
1 AATA-AAGAGCAAAGAAAAGAGTGCTCAAATTCTGCAAA
39859048 AATAAAGAGCAAAG
1 AATAAAGAGCAAAG
39859062 TTTGCTTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
37 16 0.36
38 29 0.64
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.18
Consensus pattern (38 bp):
AATAAAGAGCAAAGAAAAGAGTGCTCAAATTCTGCAAA
Done.