Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009618.1 Hibiscus syriacus cultivar Beakdansim tig00117007_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1135495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:892199 original size:19 final size:19
Alignment explanation
Indices: 892175--892265 Score: 155
Period size: 19 Copynumber: 4.8 Consensus size: 19
892165 AAAATCCTCA
892175 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
892194 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
*
892213 GTGCATTGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
*
892232 GTGCATCGATACATGGTAT
1 GTGCATCGATGCATGGTAT
*
892251 GTGAATCGATGCATG
1 GTGCATCGATGCATG
892266 AAATGCATTC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (19 bp):
GTGCATCGATGCATGGTAT
Found at i:892206 original size:66 final size:64
Alignment explanation
Indices: 892064--892207 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 64
892054 TGCACTAAGA
* * * *
892064 GTGCATCGATCCATCAAGTGCATTCGATGTTTCAAAATAGAAAGAGTGCATCGATGCATGGTTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAAAAGAAACAGTGCATCGATGCATGGTTG
* * ****
892128 GTACATCAATGCATCAAATGCATTCGATGGTTTCATAAAAATCCTCAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGAT-GTTTCA-AAAAAGAAACAGTGCATCGATGCATGGT-
892193 T-
63 TG
892194 GTGCATCGATGCAT
1 GTGCATCGATGCAT
892208 GGTATGTGCA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
64 24 0.37
65 6 0.09
66 34 0.52
67 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAAAAGAAACAGTGCATCGATGCATGGTTG
Found at i:897315 original size:37 final size:37
Alignment explanation
Indices: 897228--897327 Score: 101
Period size: 37 Copynumber: 2.7 Consensus size: 37
897218 AAGGACCGAC
* * * * *
897228 TTACCGACTGGTTTATCCATTACGATGATAAATCCAA
1 TTACCAACGGGTTCATCCGTTAGGATGATAAATCCAA
* **
897265 TTATCAACGGGTTCATTTGTTAGGATGATAAATCCAA
1 TTACCAACGGGTTCATCCGTTAGGATGATAAATCCAA
* **
897302 TTACCGATTGGTTCATCCGTTAGGAT
1 TTACCAACGGGTTCATCCGTTAGGAT
897328 AGTAAACCCA
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (37 bp):
TTACCAACGGGTTCATCCGTTAGGATGATAAATCCAA
Found at i:907708 original size:30 final size:27
Alignment explanation
Indices: 907674--907737 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 27
907664 GAAATAAATG
*
907674 AAAAATACTTTAATAAAAAACTTAATAATA
1 AAAAATACCTTAAT-AAAAACTT--TAATA
*
907704 AAAAAGACCTTAATAAAAACTTTAATA
1 AAAAATACCTTAATAAAAACTTTAATA
907731 AAAAATA
1 AAAAATA
907738 AAAAGACACC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 11 0.35
29 8 0.26
30 12 0.39
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.27
Consensus pattern (27 bp):
AAAAATACCTTAATAAAAACTTTAATA
Found at i:907730 original size:12 final size:13
Alignment explanation
Indices: 907674--907735 Score: 63
Period size: 13 Copynumber: 4.5 Consensus size: 13
907664 GAAATAAATG
907674 AAAAATACTTTAAT
1 AAAAA-ACTTTAAT
907688 AAAAAACTTAATAAT
1 AAAAAACTT--TAAT
*
907703 AAAAAAGACCTTAAT
1 -AAAAA-ACTTTAAT
907718 -AAAAACTTTAAT
1 AAAAAACTTTAAT
907730 AAAAAA
1 AAAAAA
907736 TAAAAAGACA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
12 7 0.17
13 13 0.32
14 5 0.12
15 8 0.20
16 5 0.12
17 3 0.07
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAAAACTTTAAT
Found at i:907842 original size:52 final size:52
Alignment explanation
Indices: 907771--907882 Score: 165
Period size: 51 Copynumber: 2.2 Consensus size: 52
907761 GATAAAAATC
* ** *
907771 TTTAATAAAAAATA-AAAAAAAACATAATCATTACATTAATCTTTTGGT-GT
1 TTTAATAAAAAAAATAAAAAAAACATAATCATTACACCAATCTTTTGGTAGG
*
907821 TTTAATAAAAAAAATAGAAAAAACATAATCATTACACCAATCTTTTGGTAGG
1 TTTAATAAAAAAAATAAAAAAAACATAATCATTACACCAATCTTTTGGTAGG
907873 TTTAATAAAA
1 TTTAATAAAA
907883 GAATTAGTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 13 0.24
51 31 0.56
52 11 0.20
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (52 bp):
TTTAATAAAAAAAATAAAAAAAACATAATCATTACACCAATCTTTTGGTAGG
Found at i:912938 original size:44 final size:44
Alignment explanation
Indices: 912885--912973 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
912875 TCATTTATAT
912885 TTACCCCACTCAGCTTATATCACATTCTCCTGTTATCATTTGAA
1 TTACCCCACTCAGCTTATATCACATTCTCCTGTTATCATTTGAA
912929 TTACCCCACTCAGCTTATATCACATTCTCCTGTTATCATTTGAA
1 TTACCCCACTCAGCTTATATCACATTCTCCTGTTATCATTTGAA
912973 T
1 T
912974 CATTCATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.39
Consensus pattern (44 bp):
TTACCCCACTCAGCTTATATCACATTCTCCTGTTATCATTTGAA
Found at i:913807 original size:23 final size:23
Alignment explanation
Indices: 913770--913828 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
913760 TCACCACACT
* *
913770 CGTATAAATGTACTGAAGTGCCA
1 CGTAAAAATGCACTGAAGTGCCA
* * *
913793 CGTAGAACTGCACTGAAGTGCCG
1 CGTAAAAATGCACTGAAGTGCCA
913816 CGTAAAAATGCAC
1 CGTAAAAATGCAC
913829 CAGAGTGCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAAAAATGCACTGAAGTGCCA
Found at i:919721 original size:15 final size:15
Alignment explanation
Indices: 919701--919730 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
919691 TGTATCGAAT
919701 ATACTTAGAAAATCA
1 ATACTTAGAAAATCA
919716 ATACTTAGAAAATCA
1 ATACTTAGAAAATCA
919731 TTCGTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (15 bp):
ATACTTAGAAAATCA
Found at i:920188 original size:16 final size:16
Alignment explanation
Indices: 920167--920199 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
920157 AATATCTAAA
*
920167 ACAAATTTAAACATCC
1 ACAAATTCAAACATCC
920183 ACAAATTCAAACATCC
1 ACAAATTCAAACATCC
920199 A
1 A
920200 TAAACATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (16 bp):
ACAAATTCAAACATCC
Found at i:928258 original size:15 final size:15
Alignment explanation
Indices: 928238--928267 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
928228 TGTATCGAAT
928238 ATACTTAGAAAATCA
1 ATACTTAGAAAATCA
928253 ATACTTAGAAAATCA
1 ATACTTAGAAAATCA
928268 TTCGTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (15 bp):
ATACTTAGAAAATCA
Found at i:935457 original size:315 final size:314
Alignment explanation
Indices: 934885--935515 Score: 1171
Period size: 315 Copynumber: 2.0 Consensus size: 314
934875 GATCTTTTTG
*
934885 TTGGTTTTTGGCAAAAGTCTCACATTGGTTGTGTATAAGGAGGAGGGGAAATTCTTTTGTTATAA
1 TTGGTTTTTGGCAAAAGTCCCACATTGGTTGTGTATAA-GAGGAGGGGAAATTCTTTTGTTATAA
934950 ATAAAGCCCTCCTCCTCCTTAGTTTATCATCCACAAATATAAGCCTTTCTATTTTAAAGGCTATT
65 ATAAAGCCCTCCTCCTCCTTAGTTTATCATCCACAAATATAAGCCTTTCTATTTTAAAGGCTATT
935015 TGTATTCTTTCTCTCTTTGTAATATTTCCTCTATTAGTGAAATTTTGGTGTTCTCTTTTATGTCT
130 TGTATTCTTTCTCTCTTTGTAATATTTCCTCTATTAGTGAAATTTTGGTGTTCTCTTTTATGTCT
935080 ATTTAATAGCTATTGTCGGGTATAGTTGTTGTTAATTATTGTCCTATTAAAATTACTTGTCTTGA
195 ATTTAATAGCTATTGTCGGGTATAGTTGTTGTTAATTATTGTCCTATTAAAATTACTTGTCTTGA
935145 TAGTTCTGTCTAAGGAAAGTGGGTTTTAAGAGGGACCATTGTGACTCCTCCTCTT
260 TAGTTCTGTCTAAGGAAAGTGGGTTTTAAGAGGGACCATTGTGACTCCTCCTCTT
935200 TTGGTTTTTGGCAAAAGTCCCACATTGGTTGTGTAT-A-AGGAGGGGAAATTCTTTTGTTAT-AA
1 TTGGTTTTTGGCAAAAGTCCCACATTGGTTGTGTATAAGAGGAGGGGAAATTCTTTTGTTATAAA
935262 TAAAG-CCTCCTCCTCCTTAGTTTATCATCCCACAAATATAAGCCTTCTTCTATTTTAAAGGCTA
66 TAAAGCCCTCCTCCTCCTTAGTTTATCAT-CCACAAATATAAGCC-T-TTCTATTTTAAAGGCTA
935326 TTTGTATTCTTTCTCTCTTTGTAATATTTCCTCTATTAGTGAAATATTTTGGTGTTCTCTTTTAT
128 TTTGTATTCTTTCTCTCTTTGTAATATTTCCTCTATTAGTG-AA-ATTTTGGTGTTCTCTTTTAT
935391 GTCTATTTAATAGCTATTGTCGGGTATAGTTGTTGTTAATTATTGTCCTATTAAAATTACTTGTC
191 GTCTATTTAATAGCTATTGTCGGGTATAGTTGTTGTTAATTATTGTCCTATTAAAATTACTTGTC
935456 TTGATAGTTCTGTCTAAGGAAAGTGGGTTTTAAGAGGGACCATTGTGACTCCTCCTCTT
256 TTGATAGTTCTGTCTAAGGAAAGTGGGTTTTAAGAGGGACCATTGTGACTCCTCCTCTT
935515 T
1 T
935516 CCTGGGAATC
Statistics
Matches: 310, Mismatches: 1, Indels: 10
0.97 0.00 0.03
Matches are distributed among these distances:
310 23 0.07
311 22 0.07
312 24 0.08
313 58 0.19
314 3 0.01
315 180 0.58
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (314 bp):
TTGGTTTTTGGCAAAAGTCCCACATTGGTTGTGTATAAGAGGAGGGGAAATTCTTTTGTTATAAA
TAAAGCCCTCCTCCTCCTTAGTTTATCATCCACAAATATAAGCCTTTCTATTTTAAAGGCTATTT
GTATTCTTTCTCTCTTTGTAATATTTCCTCTATTAGTGAAATTTTGGTGTTCTCTTTTATGTCTA
TTTAATAGCTATTGTCGGGTATAGTTGTTGTTAATTATTGTCCTATTAAAATTACTTGTCTTGAT
AGTTCTGTCTAAGGAAAGTGGGTTTTAAGAGGGACCATTGTGACTCCTCCTCTT
Found at i:941446 original size:80 final size:80
Alignment explanation
Indices: 941362--941523 Score: 254
Period size: 80 Copynumber: 2.0 Consensus size: 80
941352 TAGAAAAAAT
* ** *
941362 AACATTTTAGGTAGCGCCCAATATTAACATTTAC-GGTAGGAAAAAATAATGTTTTAGGTAGCGC
1 AACATTTTAGGTAGCGCCCAATATTAACATTT-CTGGTAGAAAAAAATAATGTTTTAAATAGAGC
941426 TTTACCGAAAATGTTA
65 TTTACCGAAAATGTTA
941442 AACATTTTAGGTAGCGCCCAATATTAACATTTCTGGTAGAAAAAAATAATGTTTTAAATAGAGCT
1 AACATTTTAGGTAGCGCCCAATATTAACATTTCTGGTAGAAAAAAATAATGTTTTAAATAGAGCT
* *
941507 TTATCGAAATTGTTA
66 TTACCGAAAATGTTA
941522 AA
1 AA
941524 AAAATTAACA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
79 1 0.01
80 74 0.99
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (80 bp):
AACATTTTAGGTAGCGCCCAATATTAACATTTCTGGTAGAAAAAAATAATGTTTTAAATAGAGCT
TTACCGAAAATGTTA
Found at i:942034 original size:11 final size:13
Alignment explanation
Indices: 941993--942041 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
941983 GCCCCGATTA
941993 CCCGATTACCCGG
1 CCCGATTACCCGG
942006 CCCGATTACCCGG
1 CCCGATTACCCGG
942019 CCCGA-TACCC-G
1 CCCGATTACCCGG
942030 CCCGA-TACCCGG
1 CCCGATTACCCGG
942042 GTATTCATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.31
12 6 0.17
13 18 0.51
ACGTcount: A:0.16, C:0.49, G:0.22, T:0.12
Consensus pattern (13 bp):
CCCGATTACCCGG
Found at i:944197 original size:29 final size:29
Alignment explanation
Indices: 944165--944221 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
944155 TTTTTAATCA
944165 GTTTCTAATTTGTATCTTGTATTTATTTG
1 GTTTCTAATTTGTATCTTGTATTTATTTG
*
944194 GTTTCTAATTTGTATGTTGTATTTATTT
1 GTTTCTAATTTGTATCTTGTATTTATTT
944222 CAGTCTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.18, C:0.05, G:0.14, T:0.63
Consensus pattern (29 bp):
GTTTCTAATTTGTATCTTGTATTTATTTG
Found at i:945462 original size:20 final size:20
Alignment explanation
Indices: 945437--945474 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
945427 CTATATGAGT
945437 TTGTTTTATTTATCTTTTGA
1 TTGTTTTATTTATCTTTTGA
*
945457 TTGTTTTATTTATGTTTT
1 TTGTTTTATTTATCTTTT
945475 AAATGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.03, G:0.11, T:0.74
Consensus pattern (20 bp):
TTGTTTTATTTATCTTTTGA
Found at i:949305 original size:122 final size:122
Alignment explanation
Indices: 949088--949333 Score: 456
Period size: 122 Copynumber: 2.0 Consensus size: 122
949078 CATTGACCGA
949088 AAGGCATAACCATCACATTTACTGGTGTCGGTGGAAGAGGGTCACCATTTTGATAAAATGCTAAA
1 AAGGCATAACCATCACATTTACTGGTGTCGGTGGAAGAGGGTCACCATTTTGATAAAATGCTAAA
*
949153 AATGGTTTAGTGCCTTCAATCCAGTTATCATACCACATACAAGTCAATCCTTTCCAC
66 AATGGTTTAGTGCCATCAATCCAGTTATCATACCACATACAAGTCAATCCTTTCCAC
* *
949210 AAGGCATAACCATCACATTTACTGGTGTCTGTGGAAGAGGGTCACCATTTTGATAAAATGCTACA
1 AAGGCATAACCATCACATTTACTGGTGTCGGTGGAAGAGGGTCACCATTTTGATAAAATGCTAAA
*
949275 AATGGTTTAGTGCCATCAGTCCAGTTATCATACCACATACAAGTCAATCCTTTCCAC
66 AATGGTTTAGTGCCATCAATCCAGTTATCATACCACATACAAGTCAATCCTTTCCAC
949332 AA
1 AA
949334 CCTTGAGCAT
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (122 bp):
AAGGCATAACCATCACATTTACTGGTGTCGGTGGAAGAGGGTCACCATTTTGATAAAATGCTAAA
AATGGTTTAGTGCCATCAATCCAGTTATCATACCACATACAAGTCAATCCTTTCCAC
Found at i:955324 original size:3 final size:3
Alignment explanation
Indices: 955295--955380 Score: 91
Period size: 3 Copynumber: 28.0 Consensus size: 3
955285 GGCCTGTTTG
* * * *
955295 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TTA TTA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
955342 TAA TAA TTA TTA TAA TAA TAC TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
955381 AATGAGTAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
3 65 0.92
4 6 0.08
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:955643 original size:20 final size:20
Alignment explanation
Indices: 955620--955685 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
955610 TTGAATAAGC
955620 TCTTCTCATTATGAACTTCT
1 TCTTCTCATTATGAACTTCT
* * * **
955640 TCTT-TCTTTTTCAGA-TGAAT
1 TCTTCTCATTATGA-ACT-TCT
955660 TCTTCTCATTATGAACTTCT
1 TCTTCTCATTATGAACTTCT
955680 TCTTCT
1 TCTTCT
955686 TCAGATGAGT
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
19 7 0.22
20 18 0.56
21 7 0.22
ACGTcount: A:0.18, C:0.23, G:0.06, T:0.53
Consensus pattern (20 bp):
TCTTCTCATTATGAACTTCT
Found at i:955690 original size:36 final size:38
Alignment explanation
Indices: 955620--955715 Score: 142
Period size: 36 Copynumber: 2.5 Consensus size: 38
955610 TTGAATAAGC
955620 TCTTCTCATTATGAACTTCTTCTTTCTTTTTCAGATGAAT
1 TCTTCTCATTATGAACTTCTTCTTTC--TTTCAGATGAAT
*
955660 TCTTCTCATTATGAACTTCTTC-TTC-TTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTTCTTTCAGATGAAT
*
955696 TCTTCTTATTATGAACTTCT
1 TCTTCTCATTATGAACTTCT
955716 CTGGAAAAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
36 29 0.54
39 3 0.06
40 22 0.41
ACGTcount: A:0.20, C:0.21, G:0.08, T:0.51
Consensus pattern (38 bp):
TCTTCTCATTATGAACTTCTTCTTTCTTTCAGATGAAT
Found at i:955865 original size:113 final size:113
Alignment explanation
Indices: 955657--956312 Score: 1139
Period size: 113 Copynumber: 5.8 Consensus size: 113
955647 TTTTCAGATG
* *
955657 AATTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTC
1 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
955717 TGGAAAAGCTGATCCATCGAA-TGATGGATTTGAGCATAAGGTTGAACA
66 TGGAAAAGCTGATCCATC-AAGTGATGGATTTGAGCATAAGGTTGAACA
** * * *
955765 AGCTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTT
1 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTC-T
*
955829 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
65 CTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
955878 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
955943 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
955991 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTT
1 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTC-T
*
956055 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
65 CTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
956104 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
956169 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
956217 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
956282 TGGAAAAGCTGATCCATCGAGTGATGGATTT
66 TGGAAAAGCTGATCCATCAAGTGATGGATTT
956313 AAATCTTTGC
Statistics
Matches: 525, Mismatches: 14, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
108 16 0.03
111 5 0.01
112 38 0.07
113 460 0.88
114 6 0.01
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (113 bp):
AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
Found at i:957293 original size:83 final size:83
Alignment explanation
Indices: 957154--957443 Score: 499
Period size: 83 Copynumber: 3.5 Consensus size: 83
957144 GGTTTCATAT
*
957154 CAAACAAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACATTCCTCTTCCAAA
957219 TTCAATAACTGGTTTTAC
66 TTCAATAACTGGTTTTAC
957237 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACATTCCTCTTCCAAA
957302 TTCAATAACTGGTTTTAC
66 TTCAATAACTGGTTTTAC
* * * *
957320 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACATTCCTCTTCCAAA
* *
957385 TTCAATGATTGGTTTTAC
66 TTCAATAACTGGTTTTAC
* *
957403 CAAACCAGGTCAGATAAATCAAAGAACACTTCCAGAAGATG
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
957444 CTATGAGTAC
Statistics
Matches: 198, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 198 1.00
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACATTCCTCTTCCAAA
TTCAATAACTGGTTTTAC
Found at i:958608 original size:21 final size:21
Alignment explanation
Indices: 958583--958624 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
958573 CCTTGACCCC
958583 CTTTTTCTTTT-TTCTTTTTCT
1 CTTTTT-TTTTCTTCTTTTTCT
*
958604 CTTTTTTTTTCTTTTTTTTCT
1 CTTTTTTTTTCTTCTTTTTCT
958625 TCAAGCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
CTTTTTTTTTCTTCTTTTTCT
Found at i:965975 original size:15 final size:15
Alignment explanation
Indices: 965952--965983 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
965942 TGAAATGAAT
965952 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
965967 AATGCATGTATGCAA
1 AATGAATGTATGCAA
965982 AA
1 AA
965984 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:970019 original size:15 final size:15
Alignment explanation
Indices: 970001--970030 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
969991 TTTTAAATAA
*
970001 ATATTTATTTATTAT
1 ATATATATTTATTAT
970016 ATATATATTTATTAT
1 ATATATATTTATTAT
970031 GACTACATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATATATTTATTAT
Found at i:971403 original size:3 final size:3
Alignment explanation
Indices: 971374--971456 Score: 94
Period size: 3 Copynumber: 27.0 Consensus size: 3
971364 GGCCTGTTTG
* * * *
971374 TAA TAT TAA TAAA TAA TATT TAT TAA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
971421 TAA TAA TAA TTA TAA TAA TAC TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
971457 AATGAGTAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
3 63 0.93
4 5 0.07
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:972693 original size:51 final size:51
Alignment explanation
Indices: 972617--972717 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
972607 GGCAATGCTA
**
972617 GGTGAAGGCAGGCTATAACTTGTTGGAAAAGGTATCCGCCCAAAATAGTTT
1 GGTGAAGGCACCCTATAACTTGTTGGAAAAGGTATCCGCCCAAAATAGTTT
* * * ** *
972668 GGTGAAGGCACCCTGTACCTTGTTGGATAAGGTATGTGCCTAAAATAGTT
1 GGTGAAGGCACCCTATAACTTGTTGGAAAAGGTATCCGCCCAAAATAGTT
972718 ATTCAAATTC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (51 bp):
GGTGAAGGCACCCTATAACTTGTTGGAAAAGGTATCCGCCCAAAATAGTTT
Found at i:975173 original size:12 final size:12
Alignment explanation
Indices: 975156--975188 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
975146 CTATACCATA
*
975156 TGAACAGTACCG
1 TGAACAATACCG
975168 TGAACAATACCG
1 TGAACAATACCG
975180 TGAACAATA
1 TGAACAATA
975189 ATGAATAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (12 bp):
TGAACAATACCG
Found at i:982086 original size:22 final size:22
Alignment explanation
Indices: 982061--982135 Score: 105
Period size: 22 Copynumber: 3.4 Consensus size: 22
982051 GGCATATGAA
982061 ATTTGTCCCGAATGACCTATGT
1 ATTTGTCCCGAATGACCTATGT
* * *
982083 ATTTATCCCGAATGACCAATGA
1 ATTTGTCCCGAATGACCTATGT
**
982105 ATTTGTCCCGAAAAACCTATGT
1 ATTTGTCCCGAATGACCTATGT
982127 ATTTGTCCC
1 ATTTGTCCC
982136 AAAGGACCGC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (22 bp):
ATTTGTCCCGAATGACCTATGT
Found at i:987711 original size:39 final size:41
Alignment explanation
Indices: 987668--987761 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
987658 TAAATGTAAA
*
987668 ATATAATGTAA-ATAGTAAAAA-ATATCACAACATTTAATG
1 ATATAATATAATATAGTAAAAACATATCACAACATTTAATG
987707 ATATAATATAATATAGTAAAAACATATCACAACATTTAATG
1 ATATAATATAATATAGTAAAAACATATCACAACATTTAATG
*
987748 ATAATAAAATAATA
1 AT-ATAATATAATA
987762 AAAGTTAGAT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
39 10 0.20
40 10 0.20
41 20 0.40
42 10 0.20
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.31
Consensus pattern (41 bp):
ATATAATATAATATAGTAAAAACATATCACAACATTTAATG
Found at i:988185 original size:15 final size:15
Alignment explanation
Indices: 988167--988197 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
988157 AAATGGCTAG
988167 AACAATAAATACAAA
1 AACAATAAATACAAA
*
988182 AACAGTAAATACAAA
1 AACAATAAATACAAA
988197 A
1 A
988198 GCTGCAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.13, G:0.03, T:0.13
Consensus pattern (15 bp):
AACAATAAATACAAA
Found at i:991739 original size:17 final size:17
Alignment explanation
Indices: 991709--991756 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
991699 TCGGTTTTCT
* *
991709 TTCTTATTTCTTATTTA
1 TTCTTTTTTTTTATTTA
*
991726 TTCTTTTTTTTTATTTT
1 TTCTTTTTTTTTATTTA
991743 TTCCCTTTTTTTTT
1 TT--CTTTTTTTTT
991757 GTTTTTCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 16 0.62
19 10 0.38
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.79
Consensus pattern (17 bp):
TTCTTTTTTTTTATTTA
Found at i:991753 original size:18 final size:18
Alignment explanation
Indices: 991728--991768 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
991718 CTTATTTATT
*
991728 CTTTTTTTTTATTTTTTCC
1 CTTTTTTTTT-GTTTTTCC
*
991747 CTTTTTTTTTGTTTTTCT
1 CTTTTTTTTTGTTTTTCC
991765 CTTT
1 CTTT
991769 CTTCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (18 bp):
CTTTTTTTTTGTTTTTCC
Found at i:996598 original size:13 final size:14
Alignment explanation
Indices: 996574--996603 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
996564 GCAGTCAAAT
996574 AAAAACACAAAAAC
1 AAAAACACAAAAAC
996588 AAAAACA-AAAAAC
1 AAAAACACAAAAAC
996601 AAA
1 AAA
996604 GCTATTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAACACAAAAAC
Found at i:1003132 original size:18 final size:19
Alignment explanation
Indices: 1003109--1003151 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
1003099 CAGTAATCCT
1003109 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
*
1003127 ATTCCCACTGGTAATCTTAT
1 ATT-CCACTGGTAATCTTAC
1003147 ATTCC
1 ATTCC
1003152 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 4 0.18
20 15 0.68
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:1003139 original size:20 final size:20
Alignment explanation
Indices: 1003114--1003151 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1003104 ATCCTATTCC
1003114 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
*
1003134 CTGGTAATCTTATATTCC
1 CTGGTAATCTTACATTCC
1003152 GTGAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1003873 original size:7 final size:7
Alignment explanation
Indices: 1003861--1003897 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
1003851 TTGTAGATCT
1003861 AAATGGA
1 AAATGGA
1003868 AAATGGA
1 AAATGGA
1003875 AAATGGA
1 AAATGGA
1003882 AAATGGA
1 AAATGGA
1003889 AAATGGA
1 AAATGGA
1003896 AA
1 AA
1003898 GATATAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.27, T:0.14
Consensus pattern (7 bp):
AAATGGA
Found at i:1006388 original size:37 final size:37
Alignment explanation
Indices: 1006347--1006420 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
1006337 AAATTTTTGA
* *
1006347 CATGTTTCTTATGGAGAAAAGTGGGAATGCGATATGG
1 CATGTTTCTTATGGAGAAAAGTGGGAAGGCAATATGG
1006384 CATGTTTCTTATGGAGAAAAGTGGGAAGGCAATATGG
1 CATGTTTCTTATGGAGAAAAGTGGGAAGGCAATATGG
1006421 GACATGCTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.28
Consensus pattern (37 bp):
CATGTTTCTTATGGAGAAAAGTGGGAAGGCAATATGG
Found at i:1008220 original size:20 final size:20
Alignment explanation
Indices: 1008165--1008240 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
1008155 GCTATGTAGT
* *
1008165 ATAAAAACAATTAATAAAC-
1 ATAAAAACAAATAAAAAACA
1008184 ATAATTAAA-ATAATAAAATAACA
1 ATAA--AAACA-AATAAAA-AACA
*
1008207 ATAATAA-AAATAAAAAACA
1 ATAAAAACAAATAAAAAACA
*
1008226 GTAAAAACAAATAAA
1 ATAAAAACAAATAAA
1008241 TAAAAAATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
19 13 0.28
20 15 0.33
21 11 0.24
22 3 0.07
23 4 0.09
ACGTcount: A:0.72, C:0.07, G:0.01, T:0.20
Consensus pattern (20 bp):
ATAAAAACAAATAAAAAACA
Found at i:1010164 original size:134 final size:136
Alignment explanation
Indices: 1009917--1010168 Score: 436
Period size: 134 Copynumber: 1.9 Consensus size: 136
1009907 GAGTTAAGCA
* *
1009917 AAATATCGTGAATCGAGCGATAGGTCAAACAAGCTCTTCTCATTTTGAACTTCCTCCCCTCTGTT
1 AAATATCGTGAATCGAGCGATAGGTCAAACAAGCTCTTCTCATTATGAACTTCCTCCCCTCTGTC
*
1009982 GAATGAGTTCTTCTCATTATGAACTCTCCATTTGAAAATGTTAATCCCTCAAGCGAGGAGTCGCT
66 GAATGAGTTCTTCTCATTATGAACTCTCCATTTGAAAATATTAATCCCTCAAGCGAGGAGTCGCT
1010047 GATTCG
131 GATTCG
* *
1010053 AAATGTCGTGAATCGAGCTATAGGTCAAACAAGCTCTTCTCATTATGAACTT-CT-CCCTCTGTC
1 AAATATCGTGAATCGAGCGATAGGTCAAACAAGCTCTTCTCATTATGAACTTCCTCCCCTCTGTC
*
1010116 GGATGAGTTCTTCTCATTATGAACTCTCCATTTGAAAATATTAATCCCTCAAG
66 GAATGAGTTCTTCTCATTATGAACTCTCCATTTGAAAATATTAATCCCTCAAG
1010169 TGAGACATAG
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
134 59 0.54
135 2 0.02
136 49 0.45
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (136 bp):
AAATATCGTGAATCGAGCGATAGGTCAAACAAGCTCTTCTCATTATGAACTTCCTCCCCTCTGTC
GAATGAGTTCTTCTCATTATGAACTCTCCATTTGAAAATATTAATCCCTCAAGCGAGGAGTCGCT
GATTCG
Found at i:1012392 original size:19 final size:19
Alignment explanation
Indices: 1012370--1012421 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
1012360 AACCGGGTGA
1012370 TTTTAATAAAATATTTTAT
1 TTTTAATAAAATATTTTAT
*
1012389 TTTTAATAAAACATTTTAT
1 TTTTAATAAAATATTTTAT
1012408 TTTTAATAAAATAT
1 TTTTAATAAAATAT
1012422 CGAGTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAATAAAATATTTTAT
Found at i:1014496 original size:24 final size:23
Alignment explanation
Indices: 1014464--1014517 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
1014454 TTTTTAAAAG
*
1014464 TTTTCTTATAGCATTTTTTTATT
1 TTTTATTATAGCATTTTTTTATT
* **
1014487 TCTTTATTATTGTTTTTTTTTATT
1 T-TTTATTATAGCATTTTTTTATT
1014511 TTTTATT
1 TTTTATT
1014518 TATTCGCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.76
Consensus pattern (23 bp):
TTTTATTATAGCATTTTTTTATT
Found at i:1014502 original size:20 final size:20
Alignment explanation
Indices: 1014479--1014517 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1014469 TTATAGCATT
*
1014479 TTTTTATTTCTTTATTATTG
1 TTTTTATTTATTTATTATTG
* *
1014499 TTTTTTTTTATTTTTTATT
1 TTTTTATTTATTTATTATT
1014518 TATTCGCTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTTTATTTATTTATTATTG
Found at i:1014535 original size:27 final size:24
Alignment explanation
Indices: 1014476--1014535 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
1014466 TTCTTATAGC
1014476 ATTTTTTTATTTCTTTATTATTGT
1 ATTTTTTTATTTCTTTATTATTGT
*
1014500 TTTTTTTTATTT-TTTATTTATTCGCT
1 ATTTTTTTATTTCTTTA-TTATT-G-T
1014526 ATTTTGTTTA
1 ATTTT-TTTA
1014536 CCATTTTCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 1 0.03
26 5 0.17
27 4 0.13
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (24 bp):
ATTTTTTTATTTCTTTATTATTGT
Found at i:1017102 original size:20 final size:20
Alignment explanation
Indices: 1017079--1017117 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1017069 TGGATAGTTG
1017079 TTCTCTTGCTTCTTCAAGTA
1 TTCTCTTGCTTCTTCAAGTA
1017099 TTCTCTTGCTTCTTCAAGT
1 TTCTCTTGCTTCTTCAAGT
1017118 GTTGTCAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.10, T:0.51
Consensus pattern (20 bp):
TTCTCTTGCTTCTTCAAGTA
Found at i:1017354 original size:18 final size:19
Alignment explanation
Indices: 1017316--1017366 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 19
1017306 TGTAGCCAGA
1017316 GTGTATGGATACACTACAGT
1 GTGTATGGATACACTA-AGT
*
1017336 GTGTATTGATACACT-A--
1 GTGTATGGATACACTAAGT
1017352 GTGTATGGATACACT
1 GTGTATGGATACACT
1017367 CATAGGTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 14 0.48
18 1 0.03
20 14 0.48
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (19 bp):
GTGTATGGATACACTAAGT
Found at i:1017377 original size:20 final size:20
Alignment explanation
Indices: 1017316--1017377 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
1017306 TGTAGCCAGA
*
1017316 GTGTATGGATACACT-ACAG
1 GTGTATGGATACACTCATAG
*
1017335 TGTGTATTGATACA--C-TA-
1 -GTGTATGGATACACTCATAG
1017352 GTGTATGGATACACTCATAG
1 GTGTATGGATACACTCATAG
1017372 GTGTAT
1 GTGTAT
1017378 CGGCACACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
16 12 0.35
18 2 0.06
19 2 0.06
20 18 0.53
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (20 bp):
GTGTATGGATACACTCATAG
Found at i:1017386 original size:36 final size:36
Alignment explanation
Indices: 1017315--1017387 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
1017305 TTGTAGCCAG
* *
1017315 AGTGTATGGATACACTACAGTGTGTATTGATACACT
1 AGTGTATGGATACACTACAGTGTGTATCGACACACT
* *
1017351 AGTGTATGGATACACTCATAG-GTGTATCGGCACACT
1 AGTGTATGGATACACT-ACAGTGTGTATCGACACACT
1017387 A
1 A
1017388 TTTGCATTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 29 0.91
37 3 0.09
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (36 bp):
AGTGTATGGATACACTACAGTGTGTATCGACACACT
Found at i:1017442 original size:21 final size:19
Alignment explanation
Indices: 1017416--1017484 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 19
1017406 GCAGTCATAT
1017416 GTGTATGGATACACCTGTAGG
1 GTGTATGGATACACC--TAGG
*
1017437 GTGTATCGATACACC-A--
1 GTGTATGGATACACCTAGG
1017453 GTGTATGGATACA-CTACAGG
1 GTGTATGGATACACCT--AGG
1017473 GTGTATGGATAC
1 GTGTATGGATAC
1017485 CCTTTGACAC
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
15 1 0.02
16 12 0.29
18 2 0.05
20 12 0.29
21 14 0.34
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (19 bp):
GTGTATGGATACACCTAGG
Found at i:1017755 original size:18 final size:19
Alignment explanation
Indices: 1017708--1017761 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 19
1017698 ATGTTTAATG
*
1017708 AAAAAGATACCAATTGTTA
1 AAAAAGATATCAATTGTTA
1017727 ACAAAAGGATATCAATTGTT-
1 A-AAAA-GATATCAATTGTTA
1017747 AAAAAGATATCAATT
1 AAAAAGATATCAATT
1017762 ATTACCAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.31
19 5 0.16
20 5 0.16
21 12 0.38
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTA
Found at i:1018030 original size:84 final size:83
Alignment explanation
Indices: 1017937--1018106 Score: 331
Period size: 84 Copynumber: 2.0 Consensus size: 83
1017927 AATTCATTTG
1017937 AAAAATCAAATCTCCCCATCAATGTGCATTCCAAACAAAATTTAGCTTTAAAAACTTGACACTTA
1 AAAAATCAAATCTCCCCATCAATGTGCATTCCAAACAAAATTTAGCTTTAAAAACTTGACACTTA
1018002 AATAAAATTGAATTTCAAA
66 AATAAAATTGAATTT-AAA
1018021 AAAAATCAAATCTCCCCATCAATGTGCATTCCAAACAAAATTTAGCTTTAAAAACTTGACACTTA
1 AAAAATCAAATCTCCCCATCAATGTGCATTCCAAACAAAATTTAGCTTTAAAAACTTGACACTTA
1018086 AATAAAATTGAATTTAAA
66 AATAAAATTGAATTTAAA
1018104 AAA
1 AAA
1018107 GAATAACAAA
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 6 0.07
84 80 0.93
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (83 bp):
AAAAATCAAATCTCCCCATCAATGTGCATTCCAAACAAAATTTAGCTTTAAAAACTTGACACTTA
AATAAAATTGAATTTAAA
Found at i:1019460 original size:3 final size:3
Alignment explanation
Indices: 1019452--1019489 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
1019442 AATGCCTACA
* *
1019452 TTC TTC TTC TTC TTC TTC TTC TTG TTT TTC TTC -TC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1019490 ATTTTTTCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:1020925 original size:20 final size:20
Alignment explanation
Indices: 1020900--1020963 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
1020890 CGTTGCAGCC
*
1020900 AGGGTGTATGGATATACTAT
1 AGGGTGTATGGATACACTAT
*
1020920 AGGGTGTATGGATACACTTT
1 AGGGTGTATGGATACACTAT
*
1020940 AGGGTGTATCGATACACTTAT
1 AGGGTGTATGGATACAC-TAT
1020961 AGG
1 AGG
1020964 TATATCGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 34 0.87
21 5 0.13
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (20 bp):
AGGGTGTATGGATACACTAT
Found at i:1020969 original size:20 final size:20
Alignment explanation
Indices: 1020900--1020977 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
1020890 CGTTGCAGCC
* * * *
1020900 AGGGTGTATGGATATACTAT
1 AGGGTATATCGATACACTTT
* *
1020920 AGGGTGTATGGATACACTTT
1 AGGGTATATCGATACACTTT
*
1020940 AGGGTGTATCGATACACTTAT
1 AGGGTATATCGATACACTT-T
*
1020961 A-GGTATATCGGTACACT
1 AGGGTATATCGATACACT
1020978 ATTTGCATTC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
20 50 0.96
21 2 0.04
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (20 bp):
AGGGTATATCGATACACTTT
Found at i:1020976 original size:40 final size:40
Alignment explanation
Indices: 1020900--1020977 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
1020890 CGTTGCAGCC
* * *
1020900 AGGGTGTATGGATATACTATAGGGTGTATGGATACACTTT
1 AGGGTGTATCGATACACTATAGGGTATATGGATACACTTT
1020940 AGGGTGTATCGATACACTTATA-GGTATATCGG-TACACT
1 AGGGTGTATCGATACAC-TATAGGGTATAT-GGATACACT
1020978 ATTTGCATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 27 0.82
41 6 0.18
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (40 bp):
AGGGTGTATCGATACACTATAGGGTATATGGATACACTTT
Found at i:1022186 original size:101 final size:101
Alignment explanation
Indices: 1022057--1022251 Score: 345
Period size: 101 Copynumber: 1.9 Consensus size: 101
1022047 TGACTCTACC
*
1022057 TGACTAGCTCGGGGCTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGTGTGATGAG
1 TGACTAGCTCGGGGCTGGAAGGTATGCTCCCTTTCACTTAGAGTGTAGGATGGTAGTGTGATGAG
* *
1022122 TTGACTCCCCTTAAAGTATGCTTAAAAAACTTTACT
66 ATGACTCCCATTAAAGTATGCTTAAAAAACTTTACT
*
1022158 TGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTAGGATGGTAGTGTGATGAG
1 TGACTAGCTCGGGGCTGGAAGGTATGCTCCCTTTCACTTAGAGTGTAGGATGGTAGTGTGATGAG
*
1022223 ATGACTCCTATTAAAGTATGCTTAAAAAA
66 ATGACTCCCATTAAAGTATGCTTAAAAAA
1022252 GAATTGAAGT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 89 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (101 bp):
TGACTAGCTCGGGGCTGGAAGGTATGCTCCCTTTCACTTAGAGTGTAGGATGGTAGTGTGATGAG
ATGACTCCCATTAAAGTATGCTTAAAAAACTTTACT
Found at i:1024718 original size:9 final size:8
Alignment explanation
Indices: 1024698--1024775 Score: 54
Period size: 9 Copynumber: 9.4 Consensus size: 8
1024688 TCAAAACAAT
1024698 TAATAAACA
1 TAATAAA-A
1024707 TAATTAAAA
1 TAA-TAAAA
1024716 TAATAAAA
1 TAATAAAA
*
1024724 TAACAATAA
1 TAATAA-AA
1024733 TAA-AAAA
1 TAATAAAA
*
1024740 TAAAAAACA
1 TAATAAA-A
1024749 GTAA-AAACA
1 -TAATAAA-A
*
1024758 AAATAAAA
1 TAATAAAA
1024766 TAA-AAAA
1 TAATAAAA
1024773 TAA
1 TAA
1024776 ACAAAAGTAC
Statistics
Matches: 60, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
7 12 0.20
8 20 0.33
9 21 0.35
10 7 0.12
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.19
Consensus pattern (8 bp):
TAATAAAA
Found at i:1024725 original size:23 final size:21
Alignment explanation
Indices: 1024706--1024776 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
1024696 ATTAATAAAC
1024706 ATAATTAAAATAATAAAATAACA
1 ATAA-TAAAA-AATAAAATAACA
1024729 ATAATAAAAAATAAAA-AACA
1 ATAATAAAAAATAAAATAACA
* *
1024749 GTAAAAACAAAATAAAATAA-A
1 ATAATAA-AAAATAAAATAACA
1024770 A-AATAAA
1 ATAATAAA
1024777 CAAAAGTACA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.02
20 13 0.31
21 17 0.40
22 7 0.17
23 4 0.10
ACGTcount: A:0.76, C:0.04, G:0.01, T:0.18
Consensus pattern (21 bp):
ATAATAAAAAATAAAATAACA
Found at i:1024781 original size:16 final size:16
Alignment explanation
Indices: 1024712--1024781 Score: 65
Period size: 16 Copynumber: 4.2 Consensus size: 16
1024702 AAACATAATT
1024712 AAAATAATAAAAT-AAC
1 AAAATAA-AAAATAAAC
1024728 AATAATAAAAAATAAA-
1 AA-AATAAAAAATAAAC
*
1024744 AAACAGTAAAAACA-AAAT
1 AAA-A-TAAAAA-ATAAAC
1024762 AAAATAAAAAATAAAC
1 AAAATAAAAAATAAAC
1024778 AAAA
1 AAAA
1024782 GTACAAGGAC
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
15 2 0.04
16 23 0.50
17 17 0.37
18 4 0.09
ACGTcount: A:0.79, C:0.06, G:0.01, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAATAAAC
Found at i:1025780 original size:57 final size:57
Alignment explanation
Indices: 1025692--1025805 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
1025682 TACTCTCTTT
1025692 TATTTTTATATTATTTACTGTAAACAATGCATTGGGTTCAAAATGAATAAATAAATA
1 TATTTTTATATTATTTACTGTAAACAATGCATTGGGTTCAAAATGAATAAATAAATA
1025749 TATTTTTATATTATTTACTGTAAACAATGCATTGGGTTCAAAATGAATAAATAAATA
1 TATTTTTATATTATTTACTGTAAACAATGCATTGGGTTCAAAATGAATAAATAAATA
1025806 AATAAATAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (57 bp):
TATTTTTATATTATTTACTGTAAACAATGCATTGGGTTCAAAATGAATAAATAAATA
Found at i:1028102 original size:156 final size:156
Alignment explanation
Indices: 1027818--1028114 Score: 443
Period size: 156 Copynumber: 1.9 Consensus size: 156
1027808 TTAAAAACTC
* * * *
1027818 AAATTTTGAAATGCTTTAAAAAGCCCTAAATTTTAAAAACTCTCATTTCAACTTCTAAAACCACA
1 AAATTTTGAAATACTTTAAAAAGCCCAAAACTTTAAAAACTCTCATTTCAACTCCTAAAACCACA
*
1027883 CCGATCACCACCATTTGTTGTAGACGAAGGTCCACCCGACCTAACATCCACCCAATGATCGATAA
66 CCGATCACCACCATTTGTTGTAGACGAAGGTCCACCCAACCTAACATCCACCCAATGATCGATAA
1027948 CCCTATGAAATACTTTAAAAAGCACA
131 CCCTATGAAATACTTTAAAAAGCACA
*
1027974 AAATTTT-AAATACTTTAAAAAGCTCCAAAACTTTGAAAACTCTCATTTCAACTCCTAAAACCAC
1 AAATTTTGAAATACTTTAAAAAGC-CCAAAACTTTAAAAACTCTCATTTCAACTCCTAAAACCAC
** * * * * * **
1028038 ACCGATCACTGCCCTTTGTTGTCGACGAAGGTCCACCCAACTTCACCTCCAGTCAATGATCGATA
65 ACCGATCACCACCATTTGTTGTAGACGAAGGTCCACCCAACCTAACATCCACCCAATGATCGATA
1028103 ACCCTATGAAAT
130 ACCCTATGAAAT
1028115 TGCATCCAAT
Statistics
Matches: 125, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
155 15 0.12
156 110 0.88
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.26
Consensus pattern (156 bp):
AAATTTTGAAATACTTTAAAAAGCCCAAAACTTTAAAAACTCTCATTTCAACTCCTAAAACCACA
CCGATCACCACCATTTGTTGTAGACGAAGGTCCACCCAACCTAACATCCACCCAATGATCGATAA
CCCTATGAAATACTTTAAAAAGCACA
Found at i:1029699 original size:46 final size:46
Alignment explanation
Indices: 1029632--1029722 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
1029622 GTATTAAGGG
1029632 ACTTCACCAACCTCCGTAAGTAGTAGATATAATATACAACTCTAAC
1 ACTTCACCAACCTCCGTAAGTAGTAGATATAATATACAACTCTAAC
* ** *
1029678 ACTTCACTAACCTTTGTAAGTAGTAGATGTAATATACAACTCTAA
1 ACTTCACCAACCTCCGTAAGTAGTAGATATAATATACAACTCTAA
1029723 TATTAATGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (46 bp):
ACTTCACCAACCTCCGTAAGTAGTAGATATAATATACAACTCTAAC
Found at i:1031386 original size:3 final size:3
Alignment explanation
Indices: 1031380--1031427 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
1031370 CCATTTTTTG
** * * *
1031380 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA ATA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1031428 CAACCGACCC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:1031403 original size:18 final size:19
Alignment explanation
Indices: 1031380--1031427 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
1031370 CCATTTTTTG
1031380 TTATTATTATTATTA-AAA
1 TTATTATTATTATTATAAA
1031398 TTATTATTATTATTATAAA
1 TTATTATTATTATTATAAA
*
1031417 -TATTTTTATTA
1 TTATTATTATTA
1031428 CAACCGACCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 25 0.89
19 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATTATTATTATTATAAA
Found at i:1031887 original size:11 final size:11
Alignment explanation
Indices: 1031873--1031897 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1031863 AAGAGCTGCC
1031873 GAACCACCGTG
1 GAACCACCGTG
1031884 GAACCACCGTG
1 GAACCACCGTG
1031895 GAA
1 GAA
1031898 TCAAAAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.32, G:0.28, T:0.08
Consensus pattern (11 bp):
GAACCACCGTG
Found at i:1032549 original size:15 final size:15
Alignment explanation
Indices: 1032529--1032558 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1032519 GGATTTCTTA
1032529 ATTTTAATAATTGAT
1 ATTTTAATAATTGAT
*
1032544 ATTTTAATCATTGAT
1 ATTTTAATAATTGAT
1032559 TAATAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTTTAATAATTGAT
Found at i:1032565 original size:26 final size:24
Alignment explanation
Indices: 1032532--1032601 Score: 77
Period size: 26 Copynumber: 2.8 Consensus size: 24
1032522 TTTCTTAATT
1032532 TTAATAATTGATATTTTAATCATTGA
1 TTAATAATT-ATATTTTAATCATT-A
* *
1032558 TTAATAATTATATAGTTAAATTATTA
1 TTAATAATTATAT--TTTAATCATTA
*
1032584 TTATTAATTATATTTTAA
1 TTAATAATTATATTTTAA
1032602 GTTATGTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
24 4 0.11
25 4 0.11
26 22 0.58
27 8 0.21
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (24 bp):
TTAATAATTATATTTTAATCATTA
Found at i:1036081 original size:7 final size:7
Alignment explanation
Indices: 1036046--1036086 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
1036036 TTTTCATATA
1036046 TGCATTT
1 TGCATTT
1036053 T-CATTT
1 TGCATTT
1036059 TGCATCTT
1 TGCAT-TT
1036067 TGCATTT
1 TGCATTT
*
1036074 TTCATTT
1 TGCATTT
1036081 TGCATT
1 TGCATT
1036087 CATACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:1039014 original size:13 final size:13
Alignment explanation
Indices: 1038987--1039030 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
1038977 AAAATACAGC
1038987 AAAGAAAGAAAAAA
1 AAAGAAAG-AAAAA
1039001 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
*
1039014 AAAGGAAA-AAGAA
1 AAA-GAAAGAAAAA
1039027 AAAG
1 AAAG
1039031 GGGAGAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 1 0.04
13 15 0.54
14 12 0.43
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAA
Found at i:1039029 original size:14 final size:14
Alignment explanation
Indices: 1038987--1039021 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
1038977 AAAATACAGC
1038987 AAAGAAAGAAAAAA
1 AAAGAAAGAAAAAA
1039001 AAAGAAAGAAAAAA
1 AAAGAAAGAAAAAA
*
1039015 AAGGAAA
1 AAAGAAA
1039022 AAGAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAAA
Found at i:1041397 original size:114 final size:114
Alignment explanation
Indices: 1041193--1041408 Score: 351
Period size: 114 Copynumber: 1.9 Consensus size: 114
1041183 CACGTTCTCG
*
1041193 TAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
* * * * *
1041258 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTCA
66 AGTAGGAACCCCAAAACAAAACATTGGAATTGAAAGATGAATTTGTTCA
* *
1041307 TAGTAGAAATAAGGAGCCCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
*
1041372 AGTAGGAACCCCAGAACAAAACATTGGAATTGAAAGA
66 AGTAGGAACCCCAAAACAAAACATTGGAATTGAAAGA
1041409 AGAACTGCAT
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 93 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
AGTAGGAACCCCAAAACAAAACATTGGAATTGAAAGATGAATTTGTTCA
Found at i:1043502 original size:54 final size:55
Alignment explanation
Indices: 1043413--1043517 Score: 167
Period size: 54 Copynumber: 1.9 Consensus size: 55
1043403 AAAAATCTTG
* *
1043413 GCAGAAGCCACAGAAAAAGAATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
1 GCAGAAGCCACAGAAAAAGAATGAATGCGCTGTCAAATGTTTTACGAACATCTGA
* *
1043468 GCAGAAGCCACAG-GAAAGGATGAATGCGCTGTCAAATGTTTTACGAACAT
1 GCAGAAGCCACAGAAAAAGAATGAATGCGCTGTCAAATGTTTTACGAACAT
1043518 GCTATTCTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 33 0.72
55 13 0.28
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (55 bp):
GCAGAAGCCACAGAAAAAGAATGAATGCGCTGTCAAATGTTTTACGAACATCTGA
Found at i:1044738 original size:165 final size:167
Alignment explanation
Indices: 1044427--1044750 Score: 510
Period size: 165 Copynumber: 2.0 Consensus size: 167
1044417 AAAATGAGCA
*
1044427 TTATCTTCAGATTGGGTCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
1 TTATCTTCAGATTGGGTCATGTTACCCAATAAACATGTTATTTCAAAAAACAGAATGAGAAAACG
* **
1044492 ATTTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
66 ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
* *
1044557 CTTAGTTTTTTTACTTAGTAAACTATTTCTAACAGCC
131 CATAGTTTTCTTACTTAGTAAACTATTTCTAACAGCC
* ** * *
1044594 TTATCTTGAGATTGGGTCATGTTACCCAATAAACATGTTATTT-TGAAAA-ATAATGAGAAAATG
1 TTATCTTCAGATTGGGTCATGTTACCCAATAAACATGTTATTTCAAAAAACAGAATGAGAAAACG
*
1044657 ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAATGATTT
66 ATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
1044722 TCATAG-TTTCTTACTTAGTAAACTATTTC
130 TCATAGTTTTCTTACTTAGTAAACTATTTC
1044751 CCACATCTGT
Statistics
Matches: 144, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
165 61 0.42
166 42 0.29
167 41 0.28
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (167 bp):
TTATCTTCAGATTGGGTCATGTTACCCAATAAACATGTTATTTCAAAAAACAGAATGAGAAAACG
ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
CATAGTTTTCTTACTTAGTAAACTATTTCTAACAGCC
Found at i:1044880 original size:76 final size:76
Alignment explanation
Indices: 1044754--1045998 Score: 2224
Period size: 76 Copynumber: 16.4 Consensus size: 76
1044744 CTATTTCCCA
* *
1044754 CATCTGTAAGTCCTGCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
*
1044819 AGCCTTAGGGT
66 AACCTTAGGGT
*
1044830 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1044895 AACCTTAGGGT
66 AACCTTAGGGT
* *
1044906 CATCTGTAAGTCCTGCAGTGCAAGATGTTTCCAAAAAGCTTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1044971 AACCTTAGGGT
66 AACCTTAGGGT
*
1044982 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1045047 AACCTTAGGGT
66 AACCTTAGGGT
*
1045058 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1045123 AACCTTAGGGT
66 AACCTTAGGGT
* *
1045134 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
*
1045199 AAACTTAGGGT
66 AACCTTAGGGT
1045210 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1045275 AACCTTAGGGT
66 AACCTTAGGGT
1045286 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1045351 AACCTTAGGGT
66 AACCTTAGGGT
*
1045362 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1045427 AACCTTAGGGT
66 AACCTTAGGGT
* * *
1045438 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
*
1045503 AAACTTAGGGT
66 AACCTTAGGGT
1045514 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1045579 AACCTTAGGGT
66 AACCTTAGGGT
* *
1045590 CATCTGTAAGTCCTGCAGTGTATGATGTTTCCAAAAAGCCTTCAGGAGCATTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1045655 AACCTTAGGGT
66 AACCTTAGGGT
* * *
1045666 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAATGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1045731 AACCTTAGGGT
66 AACCTTAGGGT
* *
1045742 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1045807 AACCTTA-GGT
66 AACCTTAGGGT
*
1045817 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
*
1045882 AAGCCTTAGGGT
65 AAACCTTAGGGT
*
1045894 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
*
1045958 AGCCTTAGGGT
66 AACCTTAGGGT
1045969 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1045999 TTAAGACCTC
Statistics
Matches: 1134, Mismatches: 33, Indels: 5
0.97 0.03 0.00
Matches are distributed among these distances:
75 90 0.08
76 1009 0.89
77 35 0.03
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGT
Found at i:1046176 original size:18 final size:18
Alignment explanation
Indices: 1046153--1046218 Score: 96
Period size: 18 Copynumber: 3.5 Consensus size: 18
1046143 TTCCATTTTT
1046153 TTATTATTATTATTAAAA
1 TTATTATTATTATTAAAA
1046171 TTATTATTATTATTAAAA
1 TTATTATTATTATTAAAA
*
1046189 ATATTATTATTATTATTAAA
1 TTATTATTATTATTA--AAA
1046209 TATATTATTA
1 T-TATTATTA
1046219 CAAATTCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
18 32 0.74
20 3 0.07
21 8 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATTATTATTATTAAAA
Found at i:1046179 original size:21 final size:21
Alignment explanation
Indices: 1046153--1046218 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
1046143 TTCCATTTTT
1046153 TTATTATTATTATTAAAATTA
1 TTATTATTATTATTAAAATTA
1046174 TTATTATTATTA--AAAA-TA
1 TTATTATTATTATTAAAATTA
1046192 TTATTATTATTATT-AAATATA
1 TTATTATTATTATTAAAAT-TA
1046213 TTATTA
1 TTATTA
1046219 CAAATTCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
18 14 0.34
19 7 0.17
21 20 0.49
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATTATTATTATTAAAATTA
Found at i:1046218 original size:3 final size:3
Alignment explanation
Indices: 1046153--1046206 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
1046143 TTCCATTTTT
** ** *
1046153 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA AAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1046201 TTA TTA
1 TTA TTA
1046207 AATATATTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:1047353 original size:15 final size:15
Alignment explanation
Indices: 1047333--1047362 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1047323 GGATTTCTTA
1047333 ATTTTAATAATTGAT
1 ATTTTAATAATTGAT
*
1047348 ATTTTAATCATTGAT
1 ATTTTAATAATTGAT
1047363 TAATAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTTTAATAATTGAT
Found at i:1049333 original size:30 final size:30
Alignment explanation
Indices: 1049297--1049354 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
1049287 TGAGTCGAGG
*
1049297 GTTACCTATGTCT-TTCGGGACATATGGACA
1 GTTACCTATGT-TATTCGGAACATATGGACA
1049327 GTTACCTATGTTATTCGGAACATATGGA
1 GTTACCTATGTTATTCGGAACATATGGA
1049355 TAGTGGTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (30 bp):
GTTACCTATGTTATTCGGAACATATGGACA
Found at i:1049384 original size:22 final size:22
Alignment explanation
Indices: 1049356--1049428 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
1049346 ACATATGGAT
1049356 AGTGGTCCCTCGGGACATATAC
1 AGTGGTCCCTCGGGACATATAC
** * *
1049378 AGTGGTCTTTCGGGATATATAT
1 AGTGGTCCCTCGGGACATATAC
*
1049400 AGTGGTCCCTCGAGACATATAC
1 AGTGGTCCCTCGGGACATATAC
1049422 AGTGGTC
1 AGTGGTC
1049429 TTTCGAGACA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (22 bp):
AGTGGTCCCTCGGGACATATAC
Found at i:1049434 original size:22 final size:22
Alignment explanation
Indices: 1049369--1049438 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
1049359 GGTCCCTCGG
*
1049369 GACATATACAGTGGTCTTTCGG
1 GACATATACAGTGGTCTTTCGA
* * **
1049391 GATATATATAGTGGTCCCTCGA
1 GACATATACAGTGGTCTTTCGA
1049413 GACATATACAGTGGTCTTTCGA
1 GACATATACAGTGGTCTTTCGA
1049435 GACA
1 GACA
1049439 AATGGATAGG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (22 bp):
GACATATACAGTGGTCTTTCGA
Found at i:1053550 original size:30 final size:30
Alignment explanation
Indices: 1053514--1053571 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
1053504 AGAGTCGAGG
* *
1053514 GTTACCTATG-TCCTTCGGGACATATGGACA
1 GTTACCTATGCT-CTTCAGAACATATGGACA
1053544 GTTACCTATGCTCTTCAGAACATATGGA
1 GTTACCTATGCTCTTCAGAACATATGGA
1053572 TAGTGGTCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (30 bp):
GTTACCTATGCTCTTCAGAACATATGGACA
Found at i:1055863 original size:84 final size:83
Alignment explanation
Indices: 1055722--1055893 Score: 335
Period size: 84 Copynumber: 2.1 Consensus size: 83
1055712 ATCAATTATA
1055722 AATTTATATGCTTCACAACACAATGTATGAAATCAAAGATTTATTTTAGATACACCATATTTTAT
1 AATTTATATGCTTCACAACACAATGTATGAAATCAAAGATTTATTTTAGATACACCATATTTTAT
1055787 AAAAATGTATAAGGTAGAG
66 -AAAATGTATAAGGTAGAG
1055806 AATTTATATGCTTCACAACACAATGTATGAAATCAAAGATTTATTTTAGATACACCATATTTTAT
1 AATTTATATGCTTCACAACACAATGTATGAAATCAAAGATTTATTTTAGATACACCATATTTTAT
1055871 AAAATGTATAAGGTAGAG
66 AAAATGTATAAGGTAGAG
1055889 AATTT
1 AATTT
1055894 CCAATTACAC
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 23 0.26
84 65 0.74
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (83 bp):
AATTTATATGCTTCACAACACAATGTATGAAATCAAAGATTTATTTTAGATACACCATATTTTAT
AAAATGTATAAGGTAGAG
Found at i:1067068 original size:18 final size:17
Alignment explanation
Indices: 1067037--1067075 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1067027 ACGTAGAATT
* *
1067037 TGTCCCGAATGACCACTA
1 TGTCCAGAAGGACCAC-A
1067055 TGTCCAGAAGGACCACA
1 TGTCCAGAAGGACCACA
1067072 TGTC
1 TGTC
1067076 TTATATGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (17 bp):
TGTCCAGAAGGACCACA
Found at i:1076512 original size:22 final size:21
Alignment explanation
Indices: 1076470--1076509 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1076460 GAGTTTATTT
*
1076470 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1076491 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1076510 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1080752 original size:26 final size:25
Alignment explanation
Indices: 1080717--1080765 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
1080707 GTCCCGAATG
1080717 ATCATTATGTCCAGAAGGACCACAT
1 ATCATTATGTCCAGAAGGACCACAT
* *
1080742 ATCATATATGTCCTGAATGACCAC
1 ATCAT-TATGTCCAGAAGGACCAC
1080766 TATGTCCCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (25 bp):
ATCATTATGTCCAGAAGGACCACAT
Found at i:1080771 original size:18 final size:18
Alignment explanation
Indices: 1080748--1080783 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1080738 ACATATCATA
* *
1080748 TATGTCCTGAATGACCAC
1 TATGTCCCGAAGGACCAC
1080766 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
1080784 GTAGCACCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:1083375 original size:25 final size:25
Alignment explanation
Indices: 1083338--1083408 Score: 99
Period size: 24 Copynumber: 2.9 Consensus size: 25
1083328 GAGTCAAGGG
**
1083338 TTCTACGCAGTCCTTCGGGACAAAA
1 TTCTACGTGGTCCTTCGGGACAAAA
1083363 TTCTACGTGGTCCTTCGGGAC-AAA
1 TTCTACGTGGTCCTTCGGGACAAAA
* *
1083387 TTATACGTGGTCCTTTGGGACA
1 TTCTACGTGGTCCTTCGGGACA
1083409 TATCTATGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 22 0.54
25 19 0.46
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.30
Consensus pattern (25 bp):
TTCTACGTGGTCCTTCGGGACAAAA
Found at i:1091567 original size:19 final size:22
Alignment explanation
Indices: 1091543--1091591 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1091533 CGAAATAGTA
1091543 AAAAAT-ATT-TTT-ATTCAAT
1 AAAAATAATTATTTAATTCAAT
*
1091562 AAAAATAATTATTTAATTGAAT
1 AAAAATAATTATTTAATTCAAT
1091584 -AAAATAAT
1 AAAAATAAT
1091592 ATATAAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.23
20 3 0.12
21 11 0.42
22 6 0.23
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAAATAATTATTTAATTCAAT
Found at i:1097251 original size:32 final size:32
Alignment explanation
Indices: 1097215--1097277 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1097205 GTTTTAGGTC
*
1097215 GATCTTGCTCGATATAATTGTATCTTTTATTT
1 GATCTTGCTCGATAAAATTGTATCTTTTATTT
*
1097247 GATCTTGTTCGATAAAATTGTATCTTTTATT
1 GATCTTGCTCGATAAAATTGTATCTTTTATT
1097278 CGAAACTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (32 bp):
GATCTTGCTCGATAAAATTGTATCTTTTATTT
Found at i:1100421 original size:18 final size:18
Alignment explanation
Indices: 1100398--1100434 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1100388 CTAACTAGTG
*
1100398 TAGATTAGTGTAGATTGC
1 TAGATTAGTGCAGATTGC
*
1100416 TAGATTGGTGCAGATTGC
1 TAGATTAGTGCAGATTGC
1100434 T
1 T
1100435 GAAAATTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.30, T:0.38
Consensus pattern (18 bp):
TAGATTAGTGCAGATTGC
Found at i:1103340 original size:11 final size:12
Alignment explanation
Indices: 1103324--1103353 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
1103314 TTTATTTAGG
1103324 CTCAAAAATCA-
1 CTCAAAAATCAT
1103335 CTCAAAAATCAT
1 CTCAAAAATCAT
1103347 CTCAAAA
1 CTCAAAA
1103354 GACTTGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (12 bp):
CTCAAAAATCAT
Found at i:1106549 original size:19 final size:18
Alignment explanation
Indices: 1106525--1106568 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
1106515 CTTTAATTTG
1106525 TTTATTTAATTATTTTTAT
1 TTTATTT-ATTATTTTTAT
1106544 TTTA-TT-TTATTTTTAT
1 TTTATTTATTATTTTTAT
1106560 TTT-TTTATT
1 TTTATTTATT
1106569 TTAAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 15 0.65
17 2 0.09
18 2 0.09
19 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTATTTATTATTTTTAT
Found at i:1106553 original size:16 final size:14
Alignment explanation
Indices: 1106534--1106570 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
1106524 GTTTATTTAA
1106534 TTATTTTTATTTTATT
1 TTATTTTTA-TTT-TT
1106550 TTATTTTTATTTTT
1 TTATTTTTATTTTT
1106564 TTATTTT
1 TTATTTT
1106571 AAAAACAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 9 0.43
15 3 0.14
16 9 0.43
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTATTTTTATTTTT
Found at i:1106569 original size:19 final size:20
Alignment explanation
Indices: 1106520--1106571 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
1106510 AATCTCTTTA
* *
1106520 ATTTGTTTATTTAATTATTT
1 ATTTTTTTATTTTATTATTT
*
1106540 -TTATTTTATTTTATT-TTT
1 ATTTTTTTATTTTATTATTT
1106558 ATTTTTTTATTTTA
1 ATTTTTTTATTTTA
1106572 AAAACAACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 3 0.11
19 24 0.89
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (20 bp):
ATTTTTTTATTTTATTATTT
Found at i:1114652 original size:19 final size:19
Alignment explanation
Indices: 1114606--1114649 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
1114596 CTTTAATGTG
*
1114606 TTTATTTAATTATTTTTAT
1 TTTATTTAATTATTATTAT
*
1114625 TTTATTTAATTCTTATT-T
1 TTTATTTAATTATTATTAT
1114643 TTTATTT
1 TTTATTT
1114650 TAAAAATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTAATTATTATTAT
Found at i:1117807 original size:15 final size:16
Alignment explanation
Indices: 1117767--1117808 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
1117757 GCCTAATTGC
1117767 ATAAATATAAAATAACA
1 ATAAA-ATAAAATAACA
*
1117784 AT-AACTAAAAT-ACA
1 ATAAAATAAAATAACA
1117798 ATAAAATAAAA
1 ATAAAATAAAA
1117809 GTTAGTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 5 0.23
15 13 0.59
16 2 0.09
17 2 0.09
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (16 bp):
ATAAAATAAAATAACA
Found at i:1118636 original size:2 final size:2
Alignment explanation
Indices: 1118631--1118659 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1118621 AAAATAGAAT
1118631 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1118660 TGCAGCTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1119248 original size:42 final size:41
Alignment explanation
Indices: 1119135--1119248 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 41
1119125 GCCCAAAGGT
* *
1119135 CTTATAGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGA
1 CTTATAGATGGCCCGAAGGACTTATCATCATGCTGGAAAGA
* *
1119176 CTTATAGATGGCCCGAAGGATTTAAGCATCATGCTGGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-ATCATCATGCTGGAAAGA
* *
1119218 CTTATTGATGGTCCGAAGGACTTACTCATCA
1 CTTATAGATGGCCCGAAGGACTTA-TCATCA
1119249 AGAAACCCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 23 0.37
42 40 0.63
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATGCTGGAAAGA
Found at i:1119339 original size:36 final size:36
Alignment explanation
Indices: 1119287--1120169 Score: 699
Period size: 36 Copynumber: 25.2 Consensus size: 36
1119277 CTTAGAATCT
* *
1119287 TTTGTTTCGA-GGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
*
1119322 CTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
* * *
1119358 TTCGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
* * **
1119394 TTCGTTTCAAGGGAAACTATCTCAAAAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
* * *
1119430 TTTGTTTCAAGGGAAACTATCTCAAGAGTGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
* * * * *
1119466 TTCGATTCAAGGGAAACTTTTTCAA---AG-----T
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
* * *
1119494 TTATGTTTCAAGAGAATCTGTCTCGAGGGAGACAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
* *
1119531 TTTGTTTCAAGTGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
** * *
1119567 TTCATTTCAAGGGAAACAT-TTTCAA---AG-----T
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGGGAGACAAAA
* *
1119595 TTATGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
**** *
1119632 AAAATTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
** * *
1119668 TTCATTTCAAGGGAAAC-GTTTTCAA---AG-----T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGGGAGACAAAA
1119696 TTATGTTTC-AGGAGAAACTGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAGG-GAAACTGTCTCAAGGGAGACAAAA
* *
1119733 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
** * * *
1119769 TTCATTTCAAGGGAAA-TATTTTCAA---AG-----T
1 TTTGTTTCAAGGGAAACT-GTCTCAAGGGAGACAAAA
* *
1119797 TTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
* *
1119834 TTTGTTTCAAGGGAAACTATCTCAAGGGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
* * *
1119870 TTTGTTTCAAGGGAAACTATCTCAAGGGACACGAAAT
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC-AAAA
* **
1119907 TTTGTTTCAACGGAAACTGTCTCAAGGGAG-TGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
*
1119942 TTTGTTTCAAGGGAAACTGTCTTAAGGGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
*
1119978 TTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
* * *
1120015 TTTGTTTCAAGGGAAGCTGTCTCAAGGGAGATGAAAT
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGA-CAAAA
** ** * * *
1120052 TTTGTTTTGAGTTAAAATTGTCTCAAGTGAGAAAAAA
1 TTTGTTTCAAG-GGAAACTGTCTCAAGGGAGACAAAA
* * * * *
1120089 TTCGTTTTAAGGGAAACTATCTCAAGGAAGACGAAAT
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC-AAAA
* * *
1120126 TTTGTTCCAAGGGAAATTGTCTCAAGGGAGACGAAAT
1 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC-AAAA
1120163 TTTGTTT
1 TTTGTTT
1120170 TAAAAGAAAC
Statistics
Matches: 679, Mismatches: 118, Indels: 100
0.76 0.13 0.11
Matches are distributed among these distances:
28 12 0.02
29 62 0.09
30 2 0.00
32 8 0.01
33 7 0.01
35 40 0.06
36 397 0.58
37 136 0.20
38 15 0.02
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
Found at i:1119369 original size:21 final size:21
Alignment explanation
Indices: 1119343--1119407 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
1119333 GGAAACTGTC
1119343 TCAAGGGAGACAAAATTCGTT
1 TCAAGGGAGACAAAATTCGTT
**
1119364 TCAAGGGA-A-ACTA-TC---
1 TCAAGGGAGACAAAATTCGTT
*
1119379 TCAAGAGAGACAAAATTCGTT
1 TCAAGGGAGACAAAATTCGTT
1119400 TCAAGGGA
1 TCAAGGGA
1119408 AACTATCTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 7 0.22
16 1 0.03
17 2 0.06
18 4 0.12
19 2 0.06
20 1 0.03
21 15 0.47
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTCGTT
Found at i:1119555 original size:101 final size:101
Alignment explanation
Indices: 1119289--1119996 Score: 816
Period size: 101 Copynumber: 6.9 Consensus size: 101
1119279 TAGAATCTTT
* * * *
1119289 TGTTTCGAG-GAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACTGTCTCAAGGGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* * * ***
1119353 CAAAATTCGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
66 CAAAATTCATTTCAAGGGAAACTTTTTC-A-A-AG--TTTA
* * ** * *
1119394 TTCGTTTCAAGGGAAACTATCTCAAAAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGT
1 -T-GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
1119459 GACAAAATTCGA-TTCAAGGGAAACTTTTTCAAAGTTTA
64 GACAAAATTC-ATTTCAAGGGAAACTTTTTCAAAGTTTA
* * *
1119497 TGTTTCAAGAGAATCTGTCTCGAGGGAGACAAAATTTGTTTCAAGTGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
*
1119562 CAAAATTCATTTCAAGGGAAACATTTTCAAAGTTTA
66 CAAAATTCATTTCAAGGGAAACTTTTTCAAAGTTTA
* ****
1119598 TGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAAAAAATTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
*
1119663 CAAAATTCATTTCAAGGGAAACGTTTTCAAAGTTTA
66 CAAAATTCATTTCAAGGGAAACTTTTTCAAAGTTTA
*
1119699 TGTTTCAGGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
*
1119764 TAAAATTCATTTCAAGGGAAA-TATTTTCAAAGTTTA
66 CAAAATTCATTTCAAGGGAAACT-TTTTCAAAGTTTA
* * *
1119800 TGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGGGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* ** * *
1119865 CGAAATTTGTTTCAAGGGAAACTATCTCAAGGGACACGAAATTT-
66 CAAAATTCATTTCAAGGGAAACTTTTTC-A---A-A-G---TTTA
** * *
1119909 TGTTTCAACG-GAAACTGTCTCAAGGGAG-TGAAATTTGTTTCAAGGGAAACTGTCTTAAGGGAG
1 TGTTTCAA-GAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
**
1119972 ACAAAATTTTGTTTCAAGGGAAACT
65 ACAAAA-TTCATTTCAAGGGAAACT
1119997 GTCTCAAGGG
Statistics
Matches: 529, Mismatches: 56, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
100 1 0.00
101 353 0.67
102 3 0.01
103 1 0.00
105 3 0.01
106 3 0.01
107 9 0.02
108 109 0.21
109 43 0.08
110 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (101 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
CAAAATTCATTTCAAGGGAAACTTTTTCAAAGTTTA
Found at i:1119922 original size:37 final size:37
Alignment explanation
Indices: 1119800--1120169 Score: 455
Period size: 37 Copynumber: 10.1 Consensus size: 37
1119790 TCAAAGTTTA
* * *
1119800 TGTTTCAAGAGAAATTGTCTCAAGGGAGAC-AAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTT
*
1119836 TGTTTCAAGGGAAACTATCTCAAGGGAGACGAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTT
* *
1119872 TGTTTCAAGGGAAACTATCTCAAGGGACACGAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTT
* *
1119909 TGTTTCAACGGAAACTGTCTCAAGGGAG-TGAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTT
* *
1119944 TGTTTCAAGGGAAACTGTCTTAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTT
1119981 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTT
* *
1120017 TGTTTCAAGGGAAGCTGTCTCAAGGGAGATGAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTT
** ** * * * *
1120054 TGTTTTGAGTTAAAATTGTCTCAAGTGAGA-AAAAATT
1 TGTTTCAAG-GGAAACTGTCTCAAGGGAGACGAAATTT
* * * *
1120091 CGTTTTAAGGGAAACTATCTCAAGGAAGACGAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTT
* *
1120128 TGTTCCAAGGGAAATTGTCTCAAGGGAGACGAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTT
1120165 TGTTT
1 TGTTT
1120170 TAAAAGAAAC
Statistics
Matches: 285, Mismatches: 42, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
35 28 0.10
36 117 0.41
37 125 0.44
38 15 0.05
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTT
Found at i:1119933 original size:73 final size:73
Alignment explanation
Indices: 1119800--1120169 Score: 474
Period size: 73 Copynumber: 5.1 Consensus size: 73
1119790 TCAAAGTTTA
* * * *
1119800 TGTTTCAAGAGAAATTGTCTCAAGGGAGAC-AAAATTTGTTTCAAGGGAAACTATCTCAAGGGAG
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTTGTTTCAAGGGAAACTGTCTCAAGGGAG
1119864 ACGAAATT
66 ACGAAATT
* * *
1119872 TGTTTCAAGGGAAACTATCTCAAGGGACACGAAATTTTGTTTCAACGGAAACTGTCTCAAGGGAG
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTTGTTTCAAGGGAAACTGTCTCAAGGGAG
*
1119937 -TGAAATT
66 ACGAAATT
* *
1119944 TGTTTCAAGGGAAACTGTCTTAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGTCTCAAGGGAG
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTTGTTTCAAGGGAAACTGTCTCAAGGGAG
1120009 ACGAAATT
66 ACGAAATT
* * ** ** * *
1120017 TGTTTCAAGGGAAGCTGTCTCAAGGGAGATGAAATTTTGTTTTGAGTTAAAATTGTCTCAAGTGA
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTTGTTTCAAG-GGAAACTGTCTCAAGGGA
**
1120082 GAAAAAATT
65 GACGAAATT
* * * * * *
1120091 CGTTTTAAGGGAAACTATCTCAAGGAAGACGAAATTTTGTTCCAAGGGAAATTGTCTCAAGGGAG
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTTGTTTCAAGGGAAACTGTCTCAAGGGAG
1120156 ACGAAATTT
66 ACGAAA-TT
1120165 TGTTT
1 TGTTT
1120170 TAAAAGAAAC
Statistics
Matches: 253, Mismatches: 41, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
72 92 0.36
73 97 0.38
74 64 0.25
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (73 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTTGTTTCAAGGGAAACTGTCTCAAGGGAG
ACGAAATT
Found at i:1120297 original size:21 final size:21
Alignment explanation
Indices: 1120238--1120302 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
1120228 ATTTTAAAGG
1120238 AAAAA-TGTCTCAAGCGAGAC
1 AAAAATTGTCTCAAGCGAGAC
* *
1120258 AAAATTTGT-TC---TGAG--
1 AAAAATTGTCTCAAGCGAGAC
1120273 AAAAATTGTCTCAAGCGAGAC
1 AAAAATTGTCTCAAGCGAGAC
*
1120294 AAAATTTGT
1 AAAAATTGT
1120303 TTTTAGAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 13
0.65 0.10 0.25
Matches are distributed among these distances:
15 8 0.24
16 2 0.06
17 3 0.09
19 3 0.09
20 6 0.18
21 11 0.33
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (21 bp):
AAAAATTGTCTCAAGCGAGAC
Found at i:1120336 original size:36 final size:36
Alignment explanation
Indices: 1120296--1120411 Score: 114
Period size: 34 Copynumber: 3.3 Consensus size: 36
1120286 AGCGAGACAA
* *
1120296 AATTTGTTTTTAGAGAAAACAATCTCAAGTGAGATT
1 AATTTGTTTTTAGAGAAAACTATCTCAAGTGAGATC
* * * *
1120332 AATTT-TGTTTTA-AGGAAATTATCTCCAGCGAGA-C
1 AATTTGT-TTTTAGAGAAAACTATCTCAAGTGAGATC
* *
1120366 AATTTGTTCTTAG-GAAAACTATCTCAAGTAAGATC
1 AATTTGTTTTTAGAGAAAACTATCTCAAGTGAGATC
1120401 AATTTTGTTTT
1 AA-TTTGTTTT
1120412 AAATATTTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
34 24 0.39
35 21 0.34
36 17 0.27
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (36 bp):
AATTTGTTTTTAGAGAAAACTATCTCAAGTGAGATC
Found at i:1120405 original size:69 final size:71
Alignment explanation
Indices: 1120275--1120413 Score: 201
Period size: 69 Copynumber: 2.0 Consensus size: 71
1120265 GTTCTGAGAA
* * * *
1120275 AAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAACAATCTCAAGTGAGATTAATTTTGT
1 AAATTATCTCAAGCGAGAC-AAATTTGTTCTTAGAGAAAACAATCTCAAGTAAGATCAATTTTGT
1120340 TTTAAGG
65 TTTAAGG
* *
1120347 AAATTATCTCCAGCGAGAC-AATTTGTTCTTAG-GAAAACTATCTCAAGTAAGATCAATTTTGTT
1 AAATTATCTCAAGCGAGACAAATTTGTTCTTAGAGAAAACAATCTCAAGTAAGATCAATTTTGTT
1120410 TTAA
66 TTAA
1120414 ATATTTCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
69 32 0.52
70 12 0.20
72 17 0.28
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (71 bp):
AAATTATCTCAAGCGAGACAAATTTGTTCTTAGAGAAAACAATCTCAAGTAAGATCAATTTTGTT
TTAAGG
Found at i:1120604 original size:100 final size:99
Alignment explanation
Indices: 1120438--1120652 Score: 297
Period size: 100 Copynumber: 2.2 Consensus size: 99
1120428 TGGGAAAATG
* * *
1120438 TCTCAAGCGAGACGAAGTTTGTTTTGAGAGAAACAATCTAAAGTGAGATTAACTTTGTTTCAAGT
1 TCTCAAGTGAGACG-AGTTTGTTTTAAAAGAAACAATCTAAAGTGAGATTAACTTTGTTTCAAGT
* *
1120503 AAAA-TAACTTTGAAATTTATGTTCTGAAGGAAACTA
65 AAAACAAACTTTGAAATTTA--TTCCGAAGGAAACTA
* * * *
1120539 TCTCAAGTGAGACGATTTTTTTTTAAAAGAAACAATCTCAAGTGAGATTAATTTTGTTTCAAGTA
1 TCTCAAGTGAGACGAGTTTGTTTTAAAAGAAACAATCTAAAGTGAGATTAACTTTGTTTCAAGTA
*
1120604 AAACAAACTTTGAAATTTATTCCGAAGGAAACTG
66 AAACAAACTTTGAAATTTATTCCGAAGGAAACTA
*
1120638 TCTTAAGTGAGACGA
1 TCTCAAGTGAGACGA
1120653 AATTTTCCTC
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
99 27 0.26
100 48 0.47
101 27 0.26
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.33
Consensus pattern (99 bp):
TCTCAAGTGAGACGAGTTTGTTTTAAAAGAAACAATCTAAAGTGAGATTAACTTTGTTTCAAGTA
AAACAAACTTTGAAATTTATTCCGAAGGAAACTA
Found at i:1126708 original size:17 final size:17
Alignment explanation
Indices: 1126688--1126723 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1126678 AAATAAATAA
1126688 AAAAATAAAAAAAGTAT
1 AAAAATAAAAAAAGTAT
*
1126705 AAAAATAAAACAAGTAT
1 AAAAATAAAAAAAGTAT
1126722 AA
1 AA
1126724 GGACCTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAAATAAAAAAAGTAT
Found at i:1127771 original size:99 final size:99
Alignment explanation
Indices: 1127625--1128566 Score: 835
Period size: 99 Copynumber: 9.5 Consensus size: 99
1127615 AGCAGAGCTG
* * * * *
1127625 TTTCCAAGATTGATCTGACGTTCTCAGAGAGAATGAACA-A-TTTCATCTTGAATTTACCCAAAA
1 TTTCCAAGATTGACCTGACGTCCTCAGAGAGAA-GAA-ATAGTGTCATCTTCAATTTACCCGAAA
** * *
1127688 GAAACCATATCTCTTCAATGCGGATGAGCAGTGTCA
64 GCGACCAGATCTCTTCAAAGCGGATGAGCAGTGTCA
* * *
1127724 TTTCTAAGATTGACCTGACGTCCTCGGAGAGAAGAAATAGTGTCATCTTCAATTTACCCAAAAGC
1 TTTCCAAGATTGACCTGACGTCCTCAGAGAGAAGAAATAGTGTCATCTTCAATTTACCCGAAAGC
* * *
1127789 -ATACAGATCTCTTCAAAGTGGATGACCAGTGTCA
66 GA-CCAGATCTCTTCAAAGCGGATGAGCAGTGTCA
*
1127823 TTTCCAAGATTGACCTGACGTCCTCAGAGAGAAGGAAA-AATGTCATCTTCAATTTACCCGAAAG
1 TTTCCAAGATTGACCTGACGTCCTCAGAGAGAA-GAAATAGTGTCATCTTCAATTTACCCGAAAG
** * *
1127887 CGTTCAGATTTCTTCAAAGCGAATGAGCAGTGTCA
65 CGACCAGATCTCTTCAAAGCGGATGAGCAGTGTCA
* * * *
1127922 TTTCCAAGATTGA-GTCGACTGT-CTCA-AGAGGAGGAACAGTGTCATCTTCAATTTACCCGAAA
1 TTTCCAAGATTGACCT-GAC-GTCCTCAGAGAGAAGAAATAGTGTCATCTTCAATTTACCCGAAA
* * * ** * **
1127984 GCGGCCAGATCTTTTCAATGCAAATGAGCAATGTTG
64 GCGACCAGATCTCTTCAAAGCGGATGAGCAGTGTCA
* * * * * *
1128020 TTTCCAAGATTGACCTGACGTCTTCAGAGAGAAGGAACATTG-CTATCTTTAATTTATCCGAAAG
1 TTTCCAAGATTGACCTGACGTCCTCAGAGAGAAGAAATAGTGTC-ATCTTCAATTTACCCGAAAG
* * *
1128084 TGACCAGATCTCTTCAAAGCGGTTGAGTAGTGTCA
65 CGACCAGATCTCTTCAAAGCGGATGAGCAGTGTCA
* * * *
1128119 TTTCCAAGATTGACCCGACGTCCGCATAGAGAATGAACA-A-TGTCATTTTCAATTTACCCGAAA
1 TTTCCAAGATTGACCTGACGTCCTCAGAGAGAA-GAA-ATAGTGTCATCTTCAATTTACCCGAAA
* * * * *
1128182 GCAACCAGATCTCTTCAAAGTGGATGAGTAGTTTCG
64 GCGACCAGATCTCTTCAAAGCGGATGAGCAGTGTCA
* * * * * * * * * *
1128218 TTTCCAAGATTCACCTGGCATCCTCAAATAGAAAAAATAGTGTCATTTTTAATTTACTCAAAAGC
1 TTTCCAAGATTGACCTGACGTCCTCAGAGAGAAGAAATAGTGTCATCTTCAATTTACCCGAAAGC
* * * *
1128283 GGCCATATATCTTCAAAGCGGAAGAGCAGTGTCA
66 GACCAGATCTCTTCAAAGCGGATGAGCAGTGTCA
* * * * * * * * *
1128317 TTTCCAAGATTGACCCGATGTTCTTAGAGAGAAGGAACAATGTCATCGTCAATTTACCCGAAAGT
1 TTTCCAAGATTGACCTGACGTCCTCAGAGAGAAGAAATAGTGTCATCTTCAATTTACCCGAAAGC
* * * * * * *
1128382 GTCCATATCTCCTCAAAGTGGATGTGCAATGTTA
66 GACCAGATCTCTTCAAAGCGGATGAGCAGTGTCA
* * * * * * *
1128416 TTTCCAAGATTAACCCGATGTCCTCAGAGATAAGGAATATTGTCATTTTCAATTTACCCGAAAGC
1 TTTCCAAGATTGACCTGACGTCCTCAGAGAGAAGAAATAGTGTCATCTTCAATTTACCCGAAAGC
* ** * *
1128481 GGCCAGATCTCTTCAAAATGGATAATCAGTGTCA
66 GACCAGATCTCTTCAAAGCGGATGAGCAGTGTCA
* * * * * *
1128515 TTTTCGAGATTTACCCGACGTCCTCAAAGA-ATAGGAATAGTGTCATCTTCAA
1 TTTCCAAGATTGACCTGACGTCCTCAGAGAGA-AGAAATAGTGTCATCTTCAA
1128567 AAGTGGCCAG
Statistics
Matches: 687, Mismatches: 138, Indels: 36
0.80 0.16 0.04
Matches are distributed among these distances:
97 7 0.01
98 86 0.13
99 583 0.85
100 10 0.01
101 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (99 bp):
TTTCCAAGATTGACCTGACGTCCTCAGAGAGAAGAAATAGTGTCATCTTCAATTTACCCGAAAGC
GACCAGATCTCTTCAAAGCGGATGAGCAGTGTCA
Found at i:1128541 original size:297 final size:297
Alignment explanation
Indices: 1127625--1128566 Score: 935
Period size: 297 Copynumber: 3.2 Consensus size: 297
1127615 AGCAGAGCTG
* * * * * ** * * * *
1127625 TTTCCAAGATTGATCTGACGTTCTCAGAGAGAATGAACAATTTCATCTTGAATTTACCCAAAAGA
1 TTTCCAAGATTCACCCGACGTCCTCAAAGAGAAAAAACAGTGTCATCTTCAATTTACCCAAAAGC
** * * * **
1127690 AACCATATCTCTTCAATGCGGATGAGCAGTGTCATTTCTAAGATTGACCTGACGTCCTCGGAGAG
66 GGCCATATCTCTTCAATGCGGAAGAGCAGTGTCATTTCCAAGATTGACCTGACGTTCTTAGAGAG
* * * * ** * *
1127755 AAGAAATAGTGTCATCTTCAATTTACCCAAAAGCATACAGATCTCTTCAAAGTGGATGACCAGTG
131 AAGGAACAATGTCATCTTCAATTTACCCGAAAGTGTCCAGATCTCTTCAAAGTGGATGAGCAGTG
* *
1127820 TCATTTCCAAGATTGACCTGACGTCCTCAGAGAGAAGGAAAAATGTCATCTTCAATTTACCCGAA
196 TCATTTCCAAGATTGACCCGACGTCCTCAGAGAGAAGGAAAAATGTCATTTTCAATTTACCCGAA
** * * * * *
1127885 AGCGTTCAGATTTCTTCAAAGCGAATGAGCAGTGTCA
261 AGCGACCAGATCTCTTCAAAGTGGATAATCAGTGTCA
* ** * ** *
1127922 TTTCCAAGATTGAGTCGACTGT-CTC-AAGAGGAGGAACAGTGTCATCTTCAATTTACCCGAAAG
1 TTTCCAAGATTCACCCGAC-GTCCTCAAAGAGAAAAAACAGTGTCATCTTCAATTTACCCAAAAG
* * * * **
1127985 CGGCCAGATCTTTTCAATGC-AAATGAGCAATGTTGTTTCCAAGATTGACCTGACG-TCTTCAGA
65 CGGCCATATCTCTTCAATGCGGAA-GAGCAGTGTCATTTCCAAGATTGACCTGACGTTCTT-AGA
* * * * * * *
1128048 GAGAAGGAACATTG-CTATCTTTAATTTATCCGAAAGTGACCAGATCTCTTCAAAGCGGTTGAGT
128 GAGAAGGAACAATGTC-ATCTTCAATTTACCCGAAAGTGTCCAGATCTCTTCAAAGTGGATGAGC
* * * *
1128112 AGTGTCATTTCCAAGATTGACCCGACGTCCGCATAGAGAATGAACAATGTCATTTTCAATTTACC
192 AGTGTCATTTCCAAGATTGACCCGACGTCCTCAGAGAGAAGGAAAAATGTCATTTTCAATTTACC
* * * *
1128177 CGAAAGCAACCAGATCTCTTCAAAGTGGATGAGT-AGTTTCG
257 CGAAAGCGACCAGATCTCTTCAAAGTGGAT-AATCAGTGTCA
* * * * * * * *
1128218 TTTCCAAGATTCACCTGGCATCCTCAAATAGAAAAAATAGTGTCATTTTTAATTTACTCAAAAGC
1 TTTCCAAGATTCACCCGACGTCCTCAAAGAGAAAAAACAGTGTCATCTTCAATTTACCCAAAAGC
* * * *
1128283 GGCCATATATCTTCAAAGCGGAAGAGCAGTGTCATTTCCAAGATTGACCCGATGTTCTTAGAGAG
66 GGCCATATCTCTTCAATGCGGAAGAGCAGTGTCATTTCCAAGATTGACCTGACGTTCTTAGAGAG
* * * * *
1128348 AAGGAACAATGTCATCGTCAATTTACCCGAAAGTGTCCATATCTCCTCAAAGTGGATGTGCAATG
131 AAGGAACAATGTCATCTTCAATTTACCCGAAAGTGTCCAGATCTCTTCAAAGTGGATGAGCAGTG
* * * * * *
1128413 TTATTTCCAAGATTAACCCGATGTCCTCAGAGATAAGGAATATTGTCATTTTCAATTTACCCGAA
196 TCATTTCCAAGATTGACCCGACGTCCTCAGAGAGAAGGAAAAATGTCATTTTCAATTTACCCGAA
* *
1128478 AGCGGCCAGATCTCTTCAAAATGGATAATCAGTGTCA
261 AGCGACCAGATCTCTTCAAAGTGGATAATCAGTGTCA
* * * ** *
1128515 TTTTCGAGATTTACCCGACGTCCTCAAAGA-ATAGGAATAGTGTCATCTTCAA
1 TTTCCAAGATTCACCCGACGTCCTCAAAGAGA-AAAAACAGTGTCATCTTCAA
1128567 AAGTGGCCAG
Statistics
Matches: 515, Mismatches: 118, Indels: 24
0.78 0.18 0.04
Matches are distributed among these distances:
295 5 0.01
296 231 0.45
297 270 0.52
298 9 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (297 bp):
TTTCCAAGATTCACCCGACGTCCTCAAAGAGAAAAAACAGTGTCATCTTCAATTTACCCAAAAGC
GGCCATATCTCTTCAATGCGGAAGAGCAGTGTCATTTCCAAGATTGACCTGACGTTCTTAGAGAG
AAGGAACAATGTCATCTTCAATTTACCCGAAAGTGTCCAGATCTCTTCAAAGTGGATGAGCAGTG
TCATTTCCAAGATTGACCCGACGTCCTCAGAGAGAAGGAAAAATGTCATTTTCAATTTACCCGAA
AGCGACCAGATCTCTTCAAAGTGGATAATCAGTGTCA
Found at i:1128754 original size:3 final size:3
Alignment explanation
Indices: 1128746--1128785 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1128736 TTTTAATTGT
1128746 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1128786 ATTTTGCAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1131977 original size:21 final size:22
Alignment explanation
Indices: 1131945--1131985 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
1131935 ATAAGACCTT
1131945 ACTCATGTATTTCGT-TTATTAA
1 ACTCATGTATTT-GTATTATTAA
1131967 ACTCA-GTATTTGTATTATT
1 ACTCATGTATTTGTATTATT
1131986 TGGGTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 11 0.61
22 5 0.28
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (22 bp):
ACTCATGTATTTGTATTATTAA
Found at i:1132272 original size:30 final size:30
Alignment explanation
Indices: 1132238--1132294 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1132228 ATCAAACTTC
* *
1132238 ATTTA-AAATATTTGAGTCTAGTGGAGTCGA
1 ATTTATAAA-ATTTAAGTCAAGTGGAGTCGA
1132268 ATTTATAAAATTTAAGTCAAGTGGAGT
1 ATTTATAAAATTTAAGTCAAGTGGAGT
1132295 TGTTTGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (30 bp):
ATTTATAAAATTTAAGTCAAGTGGAGTCGA
Found at i:1133079 original size:55 final size:55
Alignment explanation
Indices: 1132958--1133415 Score: 535
Period size: 55 Copynumber: 8.3 Consensus size: 55
1132948 TTTATTAAGA
* * * * * *
1132958 TGCACACGTAGTGCCTGTAC-GATAGTTCATCAACACATGATGAAGTCTGTGG-GT
1 TGCACACTTAGTGCATGTACGGTTA-TTCATCAACTCATGATGAATTCTGTGGTTT
* * ** * * *
1133012 TGCACACATAGTGCATTTACTATTATTCATCAACTCATAATGAATTCTATGGATT
1 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGTTT
* * *
1133067 TGCACACATAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTATGTGGTTT
1 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGTTT
*
1133122 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATT-TCATGGTTT
1 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCT-GTGGTTT
* * * * * * * *
1133177 TACACACTTATTGCCTATACGGTTATTTAACAACTCATGGTGAATTCCGTGGTTT
1 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGTTT
* *
1133232 TGCATACTTAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGTTT
1 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGTTT
* * ** **
1133287 TGCACACTTAGTTCCTGTACAATTATTCATCAACTCATGATGAATTCCATGGTTT
1 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGTTT
* * * * *
1133342 TGCACACGTAGTGCATGTACGATTATTTATCAACTCATGATGAATTCCGTGGTAT
1 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGTTT
1133397 TGCACACTTAGTGCATGTA
1 TGCACACTTAGTGCATGTA
1133416 GTACACGTAG
Statistics
Matches: 346, Mismatches: 54, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
54 41 0.12
55 305 0.88
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (55 bp):
TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGTTT
Found at i:1133786 original size:22 final size:22
Alignment explanation
Indices: 1133759--1133804 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1133749 TACCCCTACC
1133759 ATGGTATCGATACTACT-ATACG
1 ATGGTATCGATACT-CTAATACG
*
1133781 ATGGTATTGATACTCTAATACG
1 ATGGTATCGATACTCTAATACG
1133803 AT
1 AT
1133805 ATCGATACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (22 bp):
ATGGTATCGATACTCTAATACG
Done.