Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005680.1 Hibiscus syriacus cultivar Beakdansim tig00013285_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: 1821426
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 4 of 6
Found at i:775289 original size:6 final size:6
Alignment explanation
Indices: 775278--775303 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
775268 TAAAGCACAA
775278 ACAGCT ACAGCT ACAGCT ACAGCT AC
1 ACAGCT ACAGCT ACAGCT ACAGCT AC
775304 CTCAGCAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (6 bp):
ACAGCT
Found at i:781065 original size:39 final size:39
Alignment explanation
Indices: 780996--781132 Score: 177
Period size: 39 Copynumber: 3.5 Consensus size: 39
780986 AACCAAAACA
* * * *
780996 GGACTTGCCA-CTCTTGACGCAGCAGAATGCTCATCATCC
1 GGACTTG-CAGCTCTCGATGCAACAGGATGCTCATCATCC
* *
781035 GGACTTGCAACTCTCGATGTAACAGGATGCTCATCATCC
1 GGACTTGCAGCTCTCGATGCAACAGGATGCTCATCATCC
* *
781074 GGACTTGCAGCTCTCGATGCAGCAGGATGCTCATCACCC
1 GGACTTGCAGCTCTCGATGCAACAGGATGCTCATCATCC
*
781113 GGGCTTGCAGCTCTCGATGC
1 GGACTTGCAGCTCTCGATGC
781133 TCCATCATGT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 2 0.02
39 85 0.98
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.23
Consensus pattern (39 bp):
GGACTTGCAGCTCTCGATGCAACAGGATGCTCATCATCC
Found at i:781147 original size:39 final size:39
Alignment explanation
Indices: 780996--781148 Score: 146
Period size: 39 Copynumber: 3.9 Consensus size: 39
780986 AACCAAAACA
* * * * *
780996 GGACTTGCCA-CTCTTGACGCAGCAGAATGCTCATCATCC
1 GGACTTG-CAGCTCTCGATGCACCAGCATGCTCATCACCC
* * * * *
781035 GGACTTGCAACTCTCGATGTAACAGGATGCTCATCATCC
1 GGACTTGCAGCTCTCGATGCACCAGCATGCTCATCACCC
* *
781074 GGACTTGCAGCTCTCGATGCAGCAGGATGCTCATCACCC
1 GGACTTGCAGCTCTCGATGCACCAGCATGCTCATCACCC
* * * *
781113 GGGCTTGCAGCTCTCGATGCTCCATCATGTTCATCA
1 GGACTTGCAGCTCTCGATGCACCAGCATGCTCATCA
781149 ACTGCGCCTG
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 2 0.02
39 96 0.98
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (39 bp):
GGACTTGCAGCTCTCGATGCACCAGCATGCTCATCACCC
Found at i:785655 original size:223 final size:222
Alignment explanation
Indices: 785179--785826 Score: 1010
Period size: 223 Copynumber: 2.9 Consensus size: 222
785169 CTTGGTCTTA
* * *
785179 AATATGGAACGTTCTTTATTAAATAATTCGAAATAAATTAATCAATGTTCAATAAATGAATCAAA
1 AATATGGAATGTTCTTTATTAAATAATTCGAAACAAATTAATCAATGTTCAATAAATGGATCAAA
*
785244 ATTTAATTTTCTATTCGAATTTATAATTTCCACCACCACGACAACAAACAAGCGATTAGGTACCA
66 ATTTAATTTTCTATTCGAATTTATAATTTCCACCACCACGACAACATACAAGCGATTAGGTACCA
* *
785309 ATTTTTGGGCGTTGTGGGGTGCTAACTCTTCCCCATGCGTAATGGACTCCC-AATCCTAAAATAA
131 ATTTTTGGGCGTTGTGGGGTGCTAACTCTTCCCCATGCGTAATCGACTCCCGAA-CCTAAAATGA
* * *
785373 ATCTTTGAATCCCGTGGTCTTTTCTCAT
195 ATATTTGAATCCCGTGGTCTCTTCTCAG
* ***
785401 AATATGGAATGTTCTTTATTAAATAATTCGAAACAAATTAATCAACGTTCAATAAATGGATTGGA
1 AATATGGAATGTTCTTTATTAAATAATTCGAAACAAATTAATCAATGTTCAATAAATGGATCAAA
* * * * *
785466 ATTTAATTTTTTATCCGAGTTTATAATTTCCACCACTACAACAACATACAAGCGATTAGGTACCA
66 ATTTAATTTTCTATTCGAATTTATAATTTCCACCACCACGACAACATACAAGCGATTAGGTACCA
*
785531 ATTTTTGGGCATTGTGGGGGTGCTAACTCTTCCCCATGCGTAATCGACTCCCGAACCTAAAATGA
131 ATTTTTGGGCGTTGT-GGGGTGCTAACTCTTCCCCATGCGTAATCGACTCCCGAACCTAAAATGA
* *
785596 ATATTTGAATCTCGTGGTCTCTTCTCGG
195 ATATTTGAATCCCGTGGTCTCTTCTCAG
*
785624 AATATGGAATGTTCTTTATTAAATAATTCGAAACAAATTAATCAATGTTCAATAAATGGATCATA
1 AATATGGAATGTTCTTTATTAAATAATTCGAAACAAATTAATCAATGTTCAATAAATGGATCAAA
* *
785689 ATTTAATTTTCTATTCGAAATTATAATTTCCACCACCACGACAACATACAAGCGATTAGGTACTA
66 ATTTAATTTTCTATTCGAATTTATAATTTCCACCACCACGACAACATACAAGCGATTAGGTACCA
* * * * *
785754 ATCTTTGGACGTTGTGGGGAGCTAACTCTTCCCCATGCGTAATCAACGCCCGAACCTAAAATGAA
131 ATTTTTGGGCGTTGTGGGGTGCTAACTCTTCCCCATGCGTAATCGACTCCCGAACCTAAAATGAA
785819 TATTTGAA
196 TATTTGAA
785827 AAGCGCATAC
Statistics
Matches: 386, Mismatches: 38, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
222 186 0.48
223 198 0.51
224 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (222 bp):
AATATGGAATGTTCTTTATTAAATAATTCGAAACAAATTAATCAATGTTCAATAAATGGATCAAA
ATTTAATTTTCTATTCGAATTTATAATTTCCACCACCACGACAACATACAAGCGATTAGGTACCA
ATTTTTGGGCGTTGTGGGGTGCTAACTCTTCCCCATGCGTAATCGACTCCCGAACCTAAAATGAA
TATTTGAATCCCGTGGTCTCTTCTCAG
Found at i:785925 original size:17 final size:17
Alignment explanation
Indices: 785903--785937 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
785893 GGTGTTCTAC
*
785903 CTACCTAACCCAAATGT
1 CTACCTAACACAAATGT
785920 CTACCTAACACAAATGT
1 CTACCTAACACAAATGT
785937 C
1 C
785938 GATGGTGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.34, G:0.06, T:0.23
Consensus pattern (17 bp):
CTACCTAACACAAATGT
Found at i:786106 original size:19 final size:19
Alignment explanation
Indices: 786060--786108 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
786050 ATTACGACAA
*
786060 ATATTATAAA-TATATTTT
1 ATATTTTAAATTATATTTT
786078 ATAATTTTAAATTATATTTT
1 AT-ATTTTAAATTATATTTT
786098 AT-TTATTAAAT
1 ATATT-TTAAAT
786109 AACATTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.15
19 13 0.48
20 10 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTTAAATTATATTTT
Found at i:801979 original size:39 final size:39
Alignment explanation
Indices: 801925--802003 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
801915 TTACATTTAA
801925 TGGCCGATTAACACTTAGCAATGATAGATCTAAAAATAT
1 TGGCCGATTAACACTTAGCAATGATAGATCTAAAAATAT
*
801964 TGGCCGATTAACACTTAGCAGTGATAGATCTAAAAATAT
1 TGGCCGATTAACACTTAGCAATGATAGATCTAAAAATAT
802003 T
1 T
802004 TATAAGAGTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (39 bp):
TGGCCGATTAACACTTAGCAATGATAGATCTAAAAATAT
Found at i:806743 original size:165 final size:165
Alignment explanation
Indices: 806495--807328 Score: 996
Period size: 165 Copynumber: 5.0 Consensus size: 165
806485 GCTATGTTGT
* * **
806495 AAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
1 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCG
* * * *
806560 ACTTAAGCTATACTGCAAATGATGCGCCTTGGAGCTTAGCGTAGTCGAACTCAAAGGTC-TTTGG
66 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
** * *
806624 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
131 -TCACAGACAACCCTTCTAGACTTAAGTTATACTGC
**
806660 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAT
1 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCG
806725 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
66 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
* * * *
806790 TCACAGATAACCCTTCTAGCCTTGAGTTATACTGT
131 TCACAGACAACCCTTCTAGACTTAAGTTATACTGC
* **
806825 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
1 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCG
*
806890 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGT
66 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
** * *
806955 TGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
131 TCACAGACAACCCTTCTAGACTTAAGTTATACTGC
* * * *
806990 AAATGATATG-CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
1 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T--TTGGCAGATAGCCCTT
* ** * *
807054 CTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCAGAGCTGAGTGTAATCGAACTCGAAGGTCT
62 CTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
* * * *
807119 TTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATACTGT
126 TTTGGTCACAGACAACCCTTCTAGACTTAAGTTATACTGC
* *
807159 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTT
1 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGG---CAGATAGCCCTT
* * * * * * * * * * * **
807224 CTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGGGGGTC-
62 CTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
* * * * *
807288 TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATGCTGC
126 TTTGGTCACAGACAACCCTTCTAGACTTAAGTTATACTGC
807325 AAAT
1 AAAT
807329 AGTTTGTTTA
Statistics
Matches: 585, Mismatches: 74, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
164 28 0.05
165 301 0.51
166 35 0.06
167 4 0.01
168 44 0.08
169 77 0.13
170 96 0.16
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (165 bp):
AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCG
ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
TCACAGACAACCCTTCTAGACTTAAGTTATACTGC
Found at i:807131 original size:85 final size:81
Alignment explanation
Indices: 806495--807328 Score: 875
Period size: 85 Copynumber: 10.0 Consensus size: 81
806485 GCTATGTTGT
* * * ** * *
806495 AAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTCTTTGG-CAGATAGCCCTTCTC
1 AAATGATGTGCCCTCG-AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTA
* *
806559 GACTTAAGCTATACTGC
65 GACTTAAGTTATGCTGC
* * * * * * * *
806576 AAATGATGCGCCTTGGAGCTTAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGACAACCCTTC
1 AAATGATGTGCCCTCGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG-T--CAGATAACCCTTC
*
806641 TAGACTTAAGTTGTGCTGC
63 TAGACTTAAGTTATGCTGC
* *
806660 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG-CAGATAGCCCTTCTA
1 AAATGATGTGCCCTCG-AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTA
* *
806724 TACTTAAGCTATGCTGC
65 GACTTAAGTTATGCTGC
* * * *
806741 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTC
1 AAATGATGTGCCCTCGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGGT--CAGATAACCCTTC
* * * *
806806 TAGCCTTGAGTTATACTGT
63 TAGACTTAAGTTATGCTGC
** * *
806825 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG-CAGATAGCCCTTCTC
1 AAATGATGTGCCCTCG-AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTA
*
806889 GACTTAAGCTATGCTGC
65 GACTTAAGTTATGCTGC
* * * * * *
806906 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGACAACCCTTC
1 AAATGATGTGCCCTCGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTG--GTCAGATAACCCTTC
*
806971 TAGACTTAAGTTGTGCTGC
63 TAGACTTAAGTTATGCTGC
* * * *
806990 AAATGATATGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
1 AAATGATGTGCCCTCGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG-T--CAGATAACCCTTC
*
807055 TCGACTTAAGTTATGCTGC
63 TAGACTTAAGTTATGCTGC
807074 AAATGATGTGCCCTCAGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTT
1 AAATGATGTGCCCTC-GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGGT--CAGATAACCCTT
* * * *
807139 CTAGCCTTGAGTTATACTGT
62 CTAGACTTAAGTTATGCTGC
807159 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTT
1 AAATGATGTGCCCTCG-AGCTGAGTGTAATCGAACTCGAAGGTC-TTTGGT--CAGATAACCCTT
* * * *
807224 CTAGCCTTGAGTTATACTGT
62 CTAGACTTAAGTTATGCTGC
* ** * *
807244 AAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGGGGGTCTTTGG-CAGATAGCCCTTCTC
1 AAATGATGTGCCCTCG-AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTA
*
807308 GACTTAAGCTATGCTGC
65 GACTTAAGTTATGCTGC
807325 AAAT
1 AAAT
807329 AGTTTGTTTA
Statistics
Matches: 639, Mismatches: 94, Indels: 40
0.83 0.12 0.05
Matches are distributed among these distances:
80 73 0.11
81 129 0.20
83 5 0.01
84 197 0.31
85 230 0.36
86 5 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (81 bp):
AAATGATGTGCCCTCGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTAG
ACTTAAGTTATGCTGC
Found at i:815209 original size:175 final size:175
Alignment explanation
Indices: 814895--815252 Score: 565
Period size: 175 Copynumber: 2.0 Consensus size: 175
814885 TTATTAATTA
*
814895 ATTGACAATACATACATTTTATAGACGTAATTGCTCGAACCTAAAATCTTTAAAGAGCAATAGTT
1 ATTGACAATACATACATTTTACAGACGTAATTGCTCGAACCTAAAATCTTTAAAGAGCAATAGTT
*
814960 TCTTTTACCACCGAGATCACTTATGGGTTCAAAAGTATAAGGATTAAAAGTCAATTTGTGAGGGC
66 TCTTTTACCACCGAGATCACTTATGGGTTCAAAAGTATAAAGATTAAAAGTCAATTTGTGAGGGC
* * * *
815025 AACAATTGTCTTACTCTTACAACTCTAATCAAGTTCTACAATTGT
131 AACAATTGTCTTACTCGTACAACTCTAATAAAGTTCTACAACTAT
* * * * * * *
815070 ATTGATAATTCATATATTTTACGGACGTAATTGCTCGAATCTAAGATCTTTAAAGAGTAATAG-T
1 ATTGACAATACATACATTTTACAGACGTAATTGCTCGAACCTAAAATCTTTAAAGAGCAATAGTT
*
815134 TCTTTTTACCACCGATATCACTTATGGGTTCAAAAGTATAAAGATTAAAAGTCAATTTGTGAGGG
66 TC-TTTTACCACCGAGATCACTTATGGGTTCAAAAGTATAAAGATTAAAAGTCAATTTGTGAGGG
*
815199 CAACAATTGTCTTACTCGTACAAGTCTAATAAAGTTCTACAACTAT
130 CAACAATTGTCTTACTCGTACAACTCTAATAAAGTTCTACAACTAT
815245 ATTGACAA
1 ATTGACAA
815253 CTCAAAATCA
Statistics
Matches: 166, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
174 3 0.02
175 163 0.98
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (175 bp):
ATTGACAATACATACATTTTACAGACGTAATTGCTCGAACCTAAAATCTTTAAAGAGCAATAGTT
TCTTTTACCACCGAGATCACTTATGGGTTCAAAAGTATAAAGATTAAAAGTCAATTTGTGAGGGC
AACAATTGTCTTACTCGTACAACTCTAATAAAGTTCTACAACTAT
Found at i:823741 original size:22 final size:22
Alignment explanation
Indices: 823698--823741 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
823688 GAAAAGAAAA
***
823698 TTAAAATTTTGAATCCCGATTT
1 TTAAAATTTTGAATCAAAATTT
*
823720 TTAAAATTTTGAATTAAAATTT
1 TTAAAATTTTGAATCAAAATTT
823742 CGGATGCAGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAAATTTTGAATCAAAATTT
Found at i:824195 original size:41 final size:41
Alignment explanation
Indices: 824104--824220 Score: 123
Period size: 41 Copynumber: 2.9 Consensus size: 41
824094 AAATGACCAA
* ** * * * *
824104 CAAATTCGCAACGTGAATTTCAATTTCGCAAT-CCAGTTTC
1 CAAATTCGCAACGCGAAAGTCAAATTCGCATTGCGATTTTC
*
824144 CAATTTCGCAACGCGAATATGT-AAA-TCGCATTGCGATTTTC
1 CAAATTCGCAACGCGAA-A-GTCAAATTCGCATTGCGATTTTC
824185 CAAATTCGCAACGCGAAAGTCAAATTCGCATTGCGA
1 CAAATTCGCAACGCGAAAGTCAAATTCGCATTGCGA
824221 ATTTATAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
39 2 0.03
40 25 0.40
41 35 0.56
42 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (41 bp):
CAAATTCGCAACGCGAAAGTCAAATTCGCATTGCGATTTTC
Found at i:824208 original size:20 final size:20
Alignment explanation
Indices: 824185--824266 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
824175 TGCGATTTTC
824185 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
** *
824205 CAAATTCGCATTGCG-AATT
1 CAAATTCGCAACGCGAAAGT
* * *
824224 TATAAATCGCAA--C-ACAGT
1 CA-AATTCGCAACGCGAAAGT
*
824242 CAAATTCGTAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
824262 CAAAT
1 CAAAT
824267 GTTTTTACGC
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
17 7 0.16
18 4 0.09
19 5 0.11
20 29 0.64
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:824419 original size:22 final size:22
Alignment explanation
Indices: 824394--824444 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
824384 CTACGGCGAC
824394 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* *
824416 ATCCATCCCCATTTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
824438 ATCCGTC
1 ATCCGTC
824445 TATCTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.43, G:0.12, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:826444 original size:21 final size:21
Alignment explanation
Indices: 826418--826458 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
826408 GAATTACGTG
* *
826418 ATGAGGTTGGTGCTTTGCGTC
1 ATGAGGTCGGTACTTTGCGTC
826439 ATGAGGTCGGTACTTTGCGT
1 ATGAGGTCGGTACTTTGCGT
826459 GAAGATAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.37, T:0.37
Consensus pattern (21 bp):
ATGAGGTCGGTACTTTGCGTC
Found at i:826910 original size:21 final size:21
Alignment explanation
Indices: 826870--826950 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
826860 TACACCTATC
***
826870 ATCATTCAAGAGGAGACTCTT
1 ATCATTCAAGAGGCCCCTCTT
*
826891 ATCATTCAAGAGGCCCCTCTC
1 ATCATTCAAGAGGCCCCTCTT
* *
826912 ATCA-TCGAAGAAGCCCCTCCT
1 ATCATTC-AAGAGGCCCCTCTT
*
826933 A-CTGTTCAAGAGGCCCCT
1 ATC-ATTCAAGAGGCCCCT
826951 GTCATCGTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 3 0.06
21 43 0.90
22 2 0.04
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (21 bp):
ATCATTCAAGAGGCCCCTCTT
Found at i:826982 original size:42 final size:42
Alignment explanation
Indices: 826895--826986 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
826885 ACTCTTATCA
* * *
826895 TTCAAGAGGCCCCTCTCATCATCGAAGAAGCCCCTCCTACTG
1 TTCAAGAGGCCCCTCTCATCATCGAAGAAGCCCCGCCCACCG
* * ** * *
826937 TTCAAGAGGCCCCTGTCATCGTTTAAGAGGTCCCGCCCACCG
1 TTCAAGAGGCCCCTCTCATCATCGAAGAAGCCCCGCCCACCG
826979 TTCAAGAG
1 TTCAAGAG
826987 CCCGATTCAC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.22
Consensus pattern (42 bp):
TTCAAGAGGCCCCTCTCATCATCGAAGAAGCCCCGCCCACCG
Found at i:827781 original size:20 final size:20
Alignment explanation
Indices: 827756--827793 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
827746 GTTGAAGGTA
827756 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
827776 CAAATTCGCAACGCGAAA
1 CAAATTCGCAACGCGAAA
827794 TAAGCGTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.26, G:0.18, T:0.13
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:828084 original size:39 final size:39
Alignment explanation
Indices: 828030--828116 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
828020 TCAAGTTGTA
*
828030 GATTTTGATTTCCTTTTGCTTGGCACCATATGATATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
* * *
828069 GATTTTGATTTCCTTTTGTTTGGCACCATGTGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
828108 GATTTTGAT
1 GATTTTGAT
828117 GAGCATTGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.16, C:0.14, G:0.21, T:0.49
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:828528 original size:25 final size:25
Alignment explanation
Indices: 828494--828543 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
828484 ATTATTTTTC
* *
828494 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACACACAACAATGTT
828519 CAAATAATGTACACACAACAATGTT
1 CAAATAATGTACACACAACAATGTT
828544 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACACACAACAATGTT
Found at i:831344 original size:475 final size:475
Alignment explanation
Indices: 830454--831409 Score: 1876
Period size: 475 Copynumber: 2.0 Consensus size: 475
830444 ACAATTCCAA
830454 GGCATAACATTTGGCTCTCCAAGCTTGAGAATATGAGATACTAATCATGAATCGAGCATTCATGT
1 GGCATAACATTTGGCTCTCCAAGCTTGAGAATATGAGATACTAATCATGAATCGAGCATTCATGT
830519 CAGTCATAATTTTATGTCCCCGATATACCCTTCCATTCAAAAACATTAACTTAGCCAGAAAATCA
66 CAGTCATAATTTTATGTCCCCGATATACCCTTCCATTCAAAAACATTAACTTAGCCAGAAAATCA
830584 CCCAACACCTTTTTGTTTGCCTGTCTATGGTGAGGAAAAACTTGGGTTCTTGAACATGTATGTTT
131 CCCAACACCTTTTTGTTTGCCTGTCTATGGTGAGGAAAAACTTGGGTTCTTGAACATGTATGTTT
*
830649 ATCAATAAAAATCCTAACTTGAAACATTTTGCAATCTTTTATCCTCTTTGCAATCATACGCCACA
196 ATCAATAAAAATCCTAACTTGAAACATTTCGCAATCTTTTATCCTCTTTGCAATCATACGCCACA
830714 TACAGTTTTTGTCAATCATACACCTTGTTTCGAAACGATCTTTGCTTGATTTGTTAACTCTTAGT
261 TACAGTTTTTGTCAATCATACACCTTGTTTCGAAACGATCTTTGCTTGATTTGTTAACTCTTAGT
830779 TGATAGCCATCTTCCACACATTTCGTATACAAAGCTATCTTCAAGTCTTCCTTTGTATCAAAACA
326 TGATAGCCATCTTCCACACATTTCGTATACAAAGCTATCTTCAAGTCTTCCTTTGTATCAAAACA
830844 ATCATCTTTCTTGATACAAATAACTTTTGTGTAACAATCAACTGATATCTTTACCAATTTTTCTT
391 ATCATCTTTCTTGATACAAATAACTTTTGTGTAACAATCAACTGATATCTTTACCAATTTTTCTT
830909 CCGGTATCTGAAGTAATTAT
456 CCGGTATCTGAAGTAATTAT
830929 GGCATAACATTTGGCTCTCCAAGCTTGAGAATATGAGATACTAATCATGAATCGAGCATTCATGT
1 GGCATAACATTTGGCTCTCCAAGCTTGAGAATATGAGATACTAATCATGAATCGAGCATTCATGT
*
830994 CAGTCATAATTTTATGTCCCCGATATACCCTTCCATTCAAAAACATTAACTTAGCTAGAAAATCA
66 CAGTCATAATTTTATGTCCCCGATATACCCTTCCATTCAAAAACATTAACTTAGCCAGAAAATCA
831059 CCCAACACCTTTTTGTTTGCCTGTCTATGGTGAGGAAAAACTTGGGTTCTTGAACATGTATGTTT
131 CCCAACACCTTTTTGTTTGCCTGTCTATGGTGAGGAAAAACTTGGGTTCTTGAACATGTATGTTT
*
831124 ATCAATAAAAGTCCTAACTTGAAACATTTCGCAATCTTTTATCCTCTTTGCAATCATACGCCACA
196 ATCAATAAAAATCCTAACTTGAAACATTTCGCAATCTTTTATCCTCTTTGCAATCATACGCCACA
831189 TACAGTTTTTGTCAATCATACACCTTGTTTCGAAACGATCTTTGCTTGATTTGTTAACTCTTAGT
261 TACAGTTTTTGTCAATCATACACCTTGTTTCGAAACGATCTTTGCTTGATTTGTTAACTCTTAGT
831254 TGATAGCCATCTTCCACACATTTCGTATACAAAGCTATCTTCAAGTCTTCCTTTGTATCAAAACA
326 TGATAGCCATCTTCCACACATTTCGTATACAAAGCTATCTTCAAGTCTTCCTTTGTATCAAAACA
*
831319 ATCATCTTTCTTGATACGAATAACTTTTGTGTAACAATCAACTGATATCTTTACCAATTTTTCTT
391 ATCATCTTTCTTGATACAAATAACTTTTGTGTAACAATCAACTGATATCTTTACCAATTTTTCTT
831384 CCGGTATCTGAAGTAATTAT
456 CCGGTATCTGAAGTAATTAT
831404 GGCATA
1 GGCATA
831410 TTCCAGTTAT
Statistics
Matches: 477, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
475 477 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (475 bp):
GGCATAACATTTGGCTCTCCAAGCTTGAGAATATGAGATACTAATCATGAATCGAGCATTCATGT
CAGTCATAATTTTATGTCCCCGATATACCCTTCCATTCAAAAACATTAACTTAGCCAGAAAATCA
CCCAACACCTTTTTGTTTGCCTGTCTATGGTGAGGAAAAACTTGGGTTCTTGAACATGTATGTTT
ATCAATAAAAATCCTAACTTGAAACATTTCGCAATCTTTTATCCTCTTTGCAATCATACGCCACA
TACAGTTTTTGTCAATCATACACCTTGTTTCGAAACGATCTTTGCTTGATTTGTTAACTCTTAGT
TGATAGCCATCTTCCACACATTTCGTATACAAAGCTATCTTCAAGTCTTCCTTTGTATCAAAACA
ATCATCTTTCTTGATACAAATAACTTTTGTGTAACAATCAACTGATATCTTTACCAATTTTTCTT
CCGGTATCTGAAGTAATTAT
Found at i:831697 original size:24 final size:24
Alignment explanation
Indices: 831670--831716 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
831660 CAAAATCCGA
831670 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
831694 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
831717 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:831725 original size:24 final size:24
Alignment explanation
Indices: 831674--831725 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
831664 ATCCGAGTAT
** *
831674 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
831698 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
831722 TGAC
1 TGAC
831726 TAGTACTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:832630 original size:19 final size:18
Alignment explanation
Indices: 832606--832670 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 18
832596 ACTAAAACCT
*
832606 GTTGCGAAATTAAATTCGC
1 GTTGCGAAATTAAATTC-A
*
832625 GTTGCGAATATGAAATTCA
1 GTTGCGAA-ATTAAATTCA
*
832644 GTTGCGAATTTGAAATTCA
1 GTTGCGAAATT-AAATTCA
832663 GTTGCGAA
1 GTTGCGAA
832671 TTTGACTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 31 0.77
20 8 0.20
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (18 bp):
GTTGCGAAATTAAATTCA
Found at i:832671 original size:19 final size:20
Alignment explanation
Indices: 832606--832734 Score: 124
Period size: 20 Copynumber: 6.6 Consensus size: 20
832596 ACTAAAACCT
* *
832606 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGA
*
832625 GTTGCGAATATGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
832644 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
**
832663 GTTGCGAATTTGACTTTCGCA
1 GTTGCGAATTTGAAATTCG-A
* *
832684 -TTGCGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGA
**
832703 GTTGCGAATTTGACTTTCGA
1 GTTGCGAATTTGAAATTCGA
832723 GTTGCGAATTTG
1 GTTGCGAATTTG
832735 GAAAATCGTA
Statistics
Matches: 92, Mismatches: 12, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
19 44 0.48
20 46 0.50
21 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGA
Found at i:832771 original size:21 final size:21
Alignment explanation
Indices: 832725--832771 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
832715 ACTTTCGAGT
*
832725 TGCGAATTTGGAAAATCGTAA
1 TGCGAATTTGGAAAATCGCAA
*
832746 CGCGAATTTGGAAAATCGCAA
1 TGCGAATTTGGAAAATCGCAA
832767 TGCGA
1 TGCGA
832772 TTTACATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (21 bp):
TGCGAATTTGGAAAATCGCAA
Found at i:834999 original size:17 final size:19
Alignment explanation
Indices: 834967--835002 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
834957 TCACATTTAC
834967 TTATATCAATAATTAATAA
1 TTATATCAATAATTAATAA
834986 TTATA-CAA-AATTAATAA
1 TTATATCAATAATTAATAA
835003 AAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
TTATATCAATAATTAATAA
Found at i:838351 original size:23 final size:23
Alignment explanation
Indices: 838321--838372 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
838311 TTTTGAACAT
*
838321 GTGTTTTGTACCCAT-GATTAGGG
1 GTGTTTTGTA-CCATGGATTAGAG
838344 GTGTTTTGTACCATGGATTAGAG
1 GTGTTTTGTACCATGGATTAGAG
838367 GTGTTT
1 GTGTTT
838373 AACGAGTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.17, C:0.10, G:0.31, T:0.42
Consensus pattern (23 bp):
GTGTTTTGTACCATGGATTAGAG
Found at i:838780 original size:21 final size:21
Alignment explanation
Indices: 838754--838799 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
838744 ATTTTTTAGT
*
838754 GAGCTTAACGAGTAACAAGTC
1 GAGCTTAACGAGCAACAAGTC
*
838775 GAGCTTAACGAGCAACGAGTC
1 GAGCTTAACGAGCAACAAGTC
838796 GAGC
1 GAGC
838800 AGTAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.28, T:0.15
Consensus pattern (21 bp):
GAGCTTAACGAGCAACAAGTC
Found at i:838889 original size:31 final size:32
Alignment explanation
Indices: 838779--838894 Score: 89
Period size: 31 Copynumber: 3.7 Consensus size: 32
838769 CAAGTCGAGC
* *
838779 TTAACGAGCAACGAGTCGAGCAGTAAATTTTT
1 TTAACGAACAACGAGTCGAGCAATAAATTTTT
* * *
838811 TTAACGAGC-ACGAGTCGAGC-A-CAATTTTGA
1 TTAACGAACAACGAGTCGAGCAATAAATTTT-T
* * *
838841 TGAAC-AACGAGTCGAGTTGAGCAATAAATTTTT
1 TTAACGAAC-A-ACGAGTCGAGCAATAAATTTTT
*
838874 TTAACGAAC-ACGAGTTGAGCA
1 TTAACGAACAACGAGTCGAGCA
838895 CTGTCAAACT
Statistics
Matches: 66, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
29 8 0.12
30 4 0.06
31 22 0.33
32 18 0.27
33 5 0.08
34 9 0.14
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (32 bp):
TTAACGAACAACGAGTCGAGCAATAAATTTTT
Found at i:841447 original size:4 final size:4
Alignment explanation
Indices: 841411--841463 Score: 52
Period size: 4 Copynumber: 13.2 Consensus size: 4
841401 TTATATGAAA
* * * * * *
841411 AGAT GGAT AGAT TGAT AGAT AAAT CGAT GGAT AGAT AGAT AGAT AGTT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
841459 AGAT A
1 AGAT A
841464 CCTTCTGTAT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.43, C:0.02, G:0.26, T:0.28
Consensus pattern (4 bp):
AGAT
Found at i:842522 original size:23 final size:23
Alignment explanation
Indices: 842496--842547 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
842486 GTATTAAACG
*
842496 TATAATTATAAATTAGTTAAAAA
1 TATAATTATAAATTAATTAAAAA
* * *
842519 TATAAATGTAATTTAATTAAAAA
1 TATAATTATAAATTAATTAAAAA
842542 TATAAT
1 TATAAT
842548 ATTTATAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
TATAATTATAAATTAATTAAAAA
Found at i:845667 original size:153 final size:153
Alignment explanation
Indices: 845389--845694 Score: 612
Period size: 153 Copynumber: 2.0 Consensus size: 153
845379 GAAATAGAAC
845389 CGAATTGCATGGAATCGCTACCGTCGTTCATCACTCGATGAGACGATCTTCGTCTTTGTCCATCC
1 CGAATTGCATGGAATCGCTACCGTCGTTCATCACTCGATGAGACGATCTTCGTCTTTGTCCATCC
845454 ACTGATCCACAATCCCATCATAGCATCATACAATCTTGTCCAAGTTGGCTGGCCCTGGATAGGGA
66 ACTGATCCACAATCCCATCATAGCATCATACAATCTTGTCCAAGTTGGCTGGCCCTGGATAGGGA
845519 TGTTTAAAAAACCCGAACCCGAT
131 TGTTTAAAAAACCCGAACCCGAT
845542 CGAATTGCATGGAATCGCTACCGTCGTTCATCACTCGATGAGACGATCTTCGTCTTTGTCCATCC
1 CGAATTGCATGGAATCGCTACCGTCGTTCATCACTCGATGAGACGATCTTCGTCTTTGTCCATCC
845607 ACTGATCCACAATCCCATCATAGCATCATACAATCTTGTCCAAGTTGGCTGGCCCTGGATAGGGA
66 ACTGATCCACAATCCCATCATAGCATCATACAATCTTGTCCAAGTTGGCTGGCCCTGGATAGGGA
845672 TGTTTAAAAAACCCGAACCCGAT
131 TGTTTAAAAAACCCGAACCCGAT
845695 AGGCAAAATT
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 153 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (153 bp):
CGAATTGCATGGAATCGCTACCGTCGTTCATCACTCGATGAGACGATCTTCGTCTTTGTCCATCC
ACTGATCCACAATCCCATCATAGCATCATACAATCTTGTCCAAGTTGGCTGGCCCTGGATAGGGA
TGTTTAAAAAACCCGAACCCGAT
Found at i:845796 original size:35 final size:35
Alignment explanation
Indices: 845719--845797 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
845709 ATTGAATTAA
*
845719 ACAGGG-CAGAGAAAAATCGTTTATACTAAACGGAG
1 ACAGGGAC-GAGAAAAACCGTTTATACTAAACGGAG
** * *
845754 ATGGGGACGAGAAAAACCGTTTATGCTAAACGGGG
1 ACAGGGACGAGAAAAACCGTTTATACTAAACGGAG
845789 ACAGGGACG
1 ACAGGGACG
845798 GGAATGGGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 35 0.97
36 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.32, T:0.15
Consensus pattern (35 bp):
ACAGGGACGAGAAAAACCGTTTATACTAAACGGAG
Found at i:846045 original size:113 final size:113
Alignment explanation
Indices: 845847--846052 Score: 371
Period size: 113 Copynumber: 1.8 Consensus size: 113
845837 ATATCCGTCT
845847 CGATAAATATTAAAAATAATAATTATATATATATAATATTAATAAATTTAAATTAAATTAAAAAA
1 CGATAAATATTAAAAATAATAATTATATATATATAATATTAATAAATTTAAATTAAATTAAAAAA
845912 ATATATAATATTTATATATTTAATTTAAATATATATATATACCCGGCC
66 ATATATAATATTTATATATTTAATTTAAATATATATATATACCCGGCC
*
845960 CGATAAATATTAAAAATAATTA-T-TATATATATAATATTAATAAATTTAAATTAAATTAAAAAT
1 CGATAAATATTAAAAATAATAATTATATATATATAATATTAATAAATTTAAATTAAATTAAAAA-
846023 ATATATATAATATTTATATATTTAATTTAA
65 A-ATATATAATATTTATATATTTAATTTAA
846053 GGGTAAAGTA
Statistics
Matches: 90, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
111 39 0.43
112 2 0.02
113 49 0.54
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (113 bp):
CGATAAATATTAAAAATAATAATTATATATATATAATATTAATAAATTTAAATTAAATTAAAAAA
ATATATAATATTTATATATTTAATTTAAATATATATATATACCCGGCC
Found at i:846320 original size:35 final size:35
Alignment explanation
Indices: 846274--846349 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
846264 AAAACAGTCC
* *
846274 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
846309 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
846344 TCAATT
1 TCAATT
846350 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:846898 original size:130 final size:130
Alignment explanation
Indices: 846745--846992 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
846735 TATTTATATA
* **
846745 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
846810 TTAGCACATGATCATGACGCGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
846875 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
846940 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
846993 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:847023 original size:130 final size:129
Alignment explanation
Indices: 846759--847023 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
846749 ATTTGGTCCT
* ** *
846759 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * *** * * **** *
846824 TGACGCGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
846889 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
846954 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
847018 -A
128 CA
847019 AAATT
1 AAATT
847024 TGGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:847349 original size:28 final size:27
Alignment explanation
Indices: 847318--847380 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
847308 AGTTGATACA
*
847318 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
847346 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
847374 ATATTTT
1 ATATTTT
847381 TAATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:847481 original size:16 final size:18
Alignment explanation
Indices: 847460--847493 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
847450 ATTTCTTATT
847460 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
847476 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
847494 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:847551 original size:28 final size:28
Alignment explanation
Indices: 847493--847551 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
847483 TAAATGATTC
* ** *
847493 ATACATTAATATATGAATATATTTTTTT
1 ATACATTAATATATAAATATACATTTAT
847521 ATACATCTAA-ATATAAATATACATTTAT
1 ATACAT-TAATATATAAATATACATTTAT
847549 ATA
1 ATA
847552 AATATATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (28 bp):
ATACATTAATATATAAATATACATTTAT
Found at i:849535 original size:29 final size:31
Alignment explanation
Indices: 849475--849537 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
849465 TAAACCCTAG
849475 TGATCACAATAAAATAAAATAAAATAATTAA
1 TGATCACAATAAAATAAAATAAAATAATTAA
* *
849506 TGATCA-AATTAAAA-AAAATTAAAT-TTTAA
1 TGATCACAA-TAAAATAAAATAAAATAATTAA
849535 TGA
1 TGA
849538 GAAAAATTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.24
30 11 0.38
31 11 0.38
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (31 bp):
TGATCACAATAAAATAAAATAAAATAATTAA
Found at i:851062 original size:2 final size:2
Alignment explanation
Indices: 851055--851096 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
851045 ATTTACACCG
851055 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
851096 A
1 A
851097 GATAGAGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:851105 original size:2 final size:2
Alignment explanation
Indices: 851100--851200 Score: 202
Period size: 2 Copynumber: 50.5 Consensus size: 2
851090 ATATATAGAT
851100 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
851142 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
851184 AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
851201 TAAAAAAAAC
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 99 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:851918 original size:60 final size:60
Alignment explanation
Indices: 851785--851918 Score: 136
Period size: 60 Copynumber: 2.2 Consensus size: 60
851775 AAATAAGAGC
* * *
851785 CATAGTTTAGAGAT-TAATTTGAAATATTTAAAAGTTTAGGATAAATTTAAAATGCAAAT
1 CATATTTTAGAGATGAAATTAGAAATATTTAAAAGTTTAGGATAAATTTAAAATGCAAAT
* *
851844 CATATTATAAAGATGAAATTAG-AATATTTAAAAGGTTTAGAGACT-AATTT-AAATG--AAT
1 CATATTTTAGAGATGAAATTAGAAATATTTAAAA-GTTTAG-GA-TAAATTTAAAATGCAAAT
851902 GACATATTTTAGAGATG
1 --CATATTTTAGAGATG
851919 TGTGGTGCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
58 3 0.05
59 22 0.35
60 29 0.47
61 7 0.11
62 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.36
Consensus pattern (60 bp):
CATATTTTAGAGATGAAATTAGAAATATTTAAAAGTTTAGGATAAATTTAAAATGCAAAT
Found at i:852853 original size:31 final size:31
Alignment explanation
Indices: 852817--852881 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
852807 TGACTACATC
* **
852817 TTAATTAAATAAAAACGAAAGTGATGATATA
1 TTAATTAAATAAAAACAAAAGTGACCATATA
*
852848 TTAATTAAATAAAAATAAAAGTGACCATATA
1 TTAATTAAATAAAAACAAAAGTGACCATATA
852879 TTA
1 TTA
852882 TATTTTTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (31 bp):
TTAATTAAATAAAAACAAAAGTGACCATATA
Found at i:853127 original size:30 final size:29
Alignment explanation
Indices: 853070--853159 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
853060 TTACGTTAAA
853070 AACCCTAAATTATTATTTTTTAGAAAAAT
1 AACCCTAAATTATTATTTTTTAGAAAAAT
*
853099 AACCCTAAATTATTATTTTTTTGAAAAAAT
1 AACCCTAAATTATTATTTTTTAG-AAAAAT
* * *
853129 AACCCTAAA-CAGTATTTTCTAGAAAAAT
1 AACCCTAAATTATTATTTTTTAGAAAAAT
853157 AAC
1 AAC
853160 TCCAATTAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
28 9 0.16
29 31 0.56
30 15 0.27
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.37
Consensus pattern (29 bp):
AACCCTAAATTATTATTTTTTAGAAAAAT
Found at i:855043 original size:288 final size:287
Alignment explanation
Indices: 854485--855058 Score: 1139
Period size: 288 Copynumber: 2.0 Consensus size: 287
854475 TCTTATCAAT
854485 TTTTAGTTTAGTTTTCGTTTTAATCGTGGATTTTGTTGAATACAGGAGCTTTGCGTTGCTAATTC
1 TTTTAGTTTAGTTTTCGTTTTAATCGTGGATTTTGTTGAATACAGGAGCTTTGCGTTGCTAATTC
854550 TGGATATTGGTGATGTTTGTTTTCTTTTTTCAATTTGAAGCTGAAATGGAATGATATACAGTTTA
66 TGGATATTGGTGATGTTTGTTTTCTTTTTTCAATTTGAAGCTGAAATGGAATGATATACAGTTTA
854615 TTGTTGAGAACAAAGTGTTTTGATTGATCGAAATTTGGAGAATTTAGGGGTTTGAATTGGGTTTT
131 TTGTTGAGAACAAAGTGTTTTGATTGATCGAAATTTGGAGAATTTAGGGGTTTGAATTGGGTTTT
854680 TTTGTTGTTGTTGGGATTTTTAGCAGTCTACATTGAAACAGCTGACATCTTTGACTGGGTTTTCT
196 TTTGTTGTTGTTGGGATTTTTAGCAGTCTACATTGAAACAGCTGACATCTTTGACTGGGTTTTCT
854745 TTTATTGACTGGGAAATTGAGAATCTA
261 TTTATTGACTGGGAAATTGAGAATCTA
854772 TTTTAGTTTAGTTTTCGTTTTAATCGTGGATTTTGTTGAATACAGGAGCTTTGCGTTGCTAATTC
1 TTTTAGTTTAGTTTTCGTTTTAATCGTGGATTTTGTTGAATACAGGAGCTTTGCGTTGCTAATTC
854837 TGGATATTGGTGATGTTTGTTTTCTTTTTTCAATTTGAAGCTGAAATGGAATGATATACAGTTTA
66 TGGATATTGGTGATGTTTGTTTTCTTTTTTCAATTTGAAGCTGAAATGGAATGATATACAGTTTA
854902 TTGTTGGAGAACAAAGTGTTTTGATTGATCGAAATTTGGAGAATTTAGGGGTTTGAATTGGGTTT
131 TTGTT-GAGAACAAAGTGTTTTGATTGATCGAAATTTGGAGAATTTAGGGGTTTGAATTGGGTTT
854967 TTTTGTTGTTGTTGGGATTTTTAGCAGTCTACATTGAAACAGCTGACATCTTTGACTGGGTTTTC
195 TTTTGTTGTTGTTGGGATTTTTAGCAGTCTACATTGAAACAGCTGACATCTTTGACTGGGTTTTC
855032 TTTTATTGACTGGGAAATTGAGAATCT
260 TTTTATTGACTGGGAAATTGAGAATCT
855059 TGAACTAGAG
Statistics
Matches: 286, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
287 135 0.47
288 151 0.53
ACGTcount: A:0.23, C:0.08, G:0.24, T:0.45
Consensus pattern (287 bp):
TTTTAGTTTAGTTTTCGTTTTAATCGTGGATTTTGTTGAATACAGGAGCTTTGCGTTGCTAATTC
TGGATATTGGTGATGTTTGTTTTCTTTTTTCAATTTGAAGCTGAAATGGAATGATATACAGTTTA
TTGTTGAGAACAAAGTGTTTTGATTGATCGAAATTTGGAGAATTTAGGGGTTTGAATTGGGTTTT
TTTGTTGTTGTTGGGATTTTTAGCAGTCTACATTGAAACAGCTGACATCTTTGACTGGGTTTTCT
TTTATTGACTGGGAAATTGAGAATCTA
Found at i:860357 original size:15 final size:15
Alignment explanation
Indices: 860339--860388 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
860329 TTTGACAGAT
860339 TTTTATTTAATTTAA
1 TTTTATTTAATTTAA
*
860354 TTTTA-ATAATATTAA
1 TTTTATTTAAT-TTAA
*
860369 TTTTATTGAATTTAA
1 TTTTATTTAATTTAA
*
860384 ATTTA
1 TTTTA
860389 GGATACAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.14
15 22 0.76
16 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TTTTATTTAATTTAA
Found at i:873626 original size:26 final size:26
Alignment explanation
Indices: 873590--873644 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
873580 TGACATGTTT
873590 GGGGAATGGAAGCAAAATAATAAGAA
1 GGGGAATGGAAGCAAAATAATAAGAA
*
873616 GGGGGATGGAAGCAAAATAATAAGAA
1 GGGGAATGGAAGCAAAATAATAAGAA
873642 GGG
1 GGG
873645 AAATTGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.36, T:0.11
Consensus pattern (26 bp):
GGGGAATGGAAGCAAAATAATAAGAA
Found at i:877555 original size:2 final size:2
Alignment explanation
Indices: 877550--877597 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
877540 GTGGTTAGAT
877550 TA TA TA TA TA 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
877592 TA TA TA
1 TA TA TA
877598 CTGTGGAGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:885816 original size:174 final size:174
Alignment explanation
Indices: 885526--885873 Score: 696
Period size: 174 Copynumber: 2.0 Consensus size: 174
885516 TTTGATGATT
885526 ACAAATTTACAATACATAACCCTAAACAACGTACTGCCCTTGTTGTATATCTTTAAATGATTTTT
1 ACAAATTTACAATACATAACCCTAAACAACGTACTGCCCTTGTTGTATATCTTTAAATGATTTTT
885591 AGTTACCTGGGATAAGGTGAGCCTTTGATGGGTTTTTGGCCGTACTTCCGCCATGCCCAAGAATC
66 AGTTACCTGGGATAAGGTGAGCCTTTGATGGGTTTTTGGCCGTACTTCCGCCATGCCCAAGAATC
885656 CGACGGCGGAGCACTACTCTCACCTTTAAGGCGGGAACTTTCAA
131 CGACGGCGGAGCACTACTCTCACCTTTAAGGCGGGAACTTTCAA
885700 ACAAATTTACAATACATAACCCTAAACAACGTACTGCCCTTGTTGTATATCTTTAAATGATTTTT
1 ACAAATTTACAATACATAACCCTAAACAACGTACTGCCCTTGTTGTATATCTTTAAATGATTTTT
885765 AGTTACCTGGGATAAGGTGAGCCTTTGATGGGTTTTTGGCCGTACTTCCGCCATGCCCAAGAATC
66 AGTTACCTGGGATAAGGTGAGCCTTTGATGGGTTTTTGGCCGTACTTCCGCCATGCCCAAGAATC
885830 CGACGGCGGAGCACTACTCTCACCTTTAAGGCGGGAACTTTCAA
131 CGACGGCGGAGCACTACTCTCACCTTTAAGGCGGGAACTTTCAA
885874 CTTCCTTGAT
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
174 174 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (174 bp):
ACAAATTTACAATACATAACCCTAAACAACGTACTGCCCTTGTTGTATATCTTTAAATGATTTTT
AGTTACCTGGGATAAGGTGAGCCTTTGATGGGTTTTTGGCCGTACTTCCGCCATGCCCAAGAATC
CGACGGCGGAGCACTACTCTCACCTTTAAGGCGGGAACTTTCAA
Found at i:915233 original size:13 final size:13
Alignment explanation
Indices: 915215--915244 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
915205 CCCTTACTTT
915215 ATCATCCCACATC
1 ATCATCCCACATC
915228 ATCATCCCACATC
1 ATCATCCCACATC
915241 ATCA
1 ATCA
915245 CAAAACATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.23
Consensus pattern (13 bp):
ATCATCCCACATC
Found at i:917962 original size:2 final size:2
Alignment explanation
Indices: 917955--917986 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
917945 TGCATATAAG
917955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
917987 CACAATGTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:919266 original size:4 final size:4
Alignment explanation
Indices: 919259--919306 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
919249 AATACTTATA
919259 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
919307 ATATATGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:925520 original size:157 final size:155
Alignment explanation
Indices: 925306--925618 Score: 592
Period size: 158 Copynumber: 2.0 Consensus size: 155
925296 ATCCATCGCT
925306 GTTTATATATGTTATAAAGGTATTTAATACTATTTTTTGAATATGAGAGACAAAATTCCATGGCC
1 GTTTATATATGTTATAAAGGTATTTAATACTATTTTTTGAATATGAGAGACAAAATTCCATGGCC
925371 CGGATCAAGTGATGAGA-CTTGTTTTATAGTAGAAATGTTTGCTTATAACACATGGGGGCCATGT
66 CGGATCAAGTGATGAGAGCTTGTTTTATAGTAGAAATGTTTGCTTATAACACATGGGGGCCATGT
925435 TCAAGTTTATCTGTTTGTTTCCATG
131 TCAAGTTTATCTGTTTGTTTCCATG
925460 GTTTATATATGTTATAAAGGTAATTTAATACTATTTTTTTGAATTATGAGAGACAAAATTCCATG
1 GTTTATATATGTTATAAAGGT-ATTTAATACTA-TTTTTTGAA-TATGAGAGACAAAATTCCATG
925525 GCCCGGATCAAGTGATGAGAGCTTGTTTTATAGTAGAAATGTTTGCTTATAACACATGGGGGCCA
63 GCCCGGATCAAGTGATGAGAGCTTGTTTTATAGTAGAAATGTTTGCTTATAACACATGGGGGCCA
925590 TGTTCAAGTTTATCTGTTTGTTTCCATG
128 TGTTCAAGTTTATCTGTTTGTTTCCATG
925618 G
1 G
925619 CACCCAACAA
Statistics
Matches: 155, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
154 21 0.14
155 11 0.07
156 9 0.06
157 41 0.26
158 73 0.47
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (155 bp):
GTTTATATATGTTATAAAGGTATTTAATACTATTTTTTGAATATGAGAGACAAAATTCCATGGCC
CGGATCAAGTGATGAGAGCTTGTTTTATAGTAGAAATGTTTGCTTATAACACATGGGGGCCATGT
TCAAGTTTATCTGTTTGTTTCCATG
Found at i:926668 original size:3 final size:3
Alignment explanation
Indices: 926601--926654 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
926591 TTTTTGCCCC
* * *
926601 ATT ATC ATT ATT ATT ATT ATT GTT ATT ATT AAT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
926648 ATT ATT A
1 ATT ATT A
926655 AATAATAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:928190 original size:12 final size:12
Alignment explanation
Indices: 928173--928197 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
928163 ATGCAATTAG
928173 TGCATCGATGCA
1 TGCATCGATGCA
928185 TGCATCGATGCA
1 TGCATCGATGCA
928197 T
1 T
928198 TCCATTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (12 bp):
TGCATCGATGCA
Found at i:928191 original size:57 final size:57
Alignment explanation
Indices: 928128--928241 Score: 151
Period size: 57 Copynumber: 2.0 Consensus size: 57
928118 GCACAGGTAG
** *
928128 TGCATCGATGCACTCTTTTAA-AATAAAAGCATCGAATGCA-ATTAGTGCATCGATGCA
1 TGCATCGATGCACTCCATTAATAATAAAA-CATCGAATGCATATTA-TGCACCGATGCA
* *
928185 TGCATCGATGCATTCCATTAATAATAAAACATCGAATGCATTTTATGCACCGATGCA
1 TGCATCGATGCACTCCATTAATAATAAAACATCGAATGCATATTATGCACCGATGCA
928242 CAAGTAGTGC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
57 40 0.80
58 10 0.20
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (57 bp):
TGCATCGATGCACTCCATTAATAATAAAACATCGAATGCATATTATGCACCGATGCA
Found at i:928806 original size:15 final size:15
Alignment explanation
Indices: 928788--928821 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
928778 GAGGGTATAA
*
928788 TAGTCCTTTGGGACG
1 TAGTCCTTCGGGACG
*
928803 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
928818 TAGT
1 TAGT
928822 GGTCCTACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:934977 original size:45 final size:46
Alignment explanation
Indices: 934925--935030 Score: 128
Period size: 45 Copynumber: 2.3 Consensus size: 46
934915 GATGCACAGG
** *
934925 TAGTGCATCGATGCACTCTTTTAA-AATAAAAGCATCGAATGCA-AT
1 TAGTGCATCGATGCACTCCATTAATAATAAAA-CATCGAAAGCATAT
* *
934970 TAGTGCATCGATGCATTCCATTAATAATAAAACATCGAAAGCATTT
1 TAGTGCATCGATGCACTCCATTAATAATAAAACATCGAAAGCATAT
*
935016 TA-TGCACCGATGCAC
1 TAGTGCATCGATGCAC
935031 AAGTAGTGCA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 42 0.81
46 10 0.19
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (46 bp):
TAGTGCATCGATGCACTCCATTAATAATAAAACATCGAAAGCATAT
Found at i:935594 original size:15 final size:15
Alignment explanation
Indices: 935576--935609 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
935566 GAGTGTGTAA
935576 TAGTCATTCGGGACG
1 TAGTCATTCGGGACG
* *
935591 TAGTCCTTCGGGATG
1 TAGTCATTCGGGACG
935606 TAGT
1 TAGT
935610 GGTCCTACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (15 bp):
TAGTCATTCGGGACG
Found at i:936485 original size:22 final size:22
Alignment explanation
Indices: 936460--936525 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
936450 TTAATAGTGT
*
936460 CCGGAATAGTGACTGACGGTGG
1 CCGGAATAGTGACCGACGGTGG
936482 CCGGAATAGTGACCGACGGTGG
1 CCGGAATAGTGACCGACGGTGG
*
936504 CCGGAATAGTGGCCGACGGTGG
1 CCGGAATAGTGACCGACGGTGG
936526 TCGGCTGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.21, C:0.21, G:0.42, T:0.15
Consensus pattern (22 bp):
CCGGAATAGTGACCGACGGTGG
Found at i:937075 original size:16 final size:16
Alignment explanation
Indices: 937054--937085 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
937044 TTAATTTAGT
937054 ATTTTAATTATTGTTC
1 ATTTTAATTATTGTTC
937070 ATTTTAATTATTGTTC
1 ATTTTAATTATTGTTC
937086 TTTATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (16 bp):
ATTTTAATTATTGTTC
Found at i:937119 original size:2 final size:2
Alignment explanation
Indices: 937112--937138 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
937102 TTAGTCACGT
937112 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 T
937139 GAAAAATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:939466 original size:30 final size:30
Alignment explanation
Indices: 939426--939487 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
939416 AAATAAAAGG
* *
939426 AAAAATGGAATAAG-TAAAACAGTAAATAA
1 AAAAATGGAATAAGATAAAAAAATAAATAA
939455 AAAAGATGGAATAAGATAAAAAAATAAATAA
1 AAAA-ATGGAATAAGATAAAAAAATAAATAA
939486 AA
1 AA
939488 GAAAAGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 4 0.14
30 10 0.34
31 15 0.52
ACGTcount: A:0.69, C:0.02, G:0.13, T:0.16
Consensus pattern (30 bp):
AAAAATGGAATAAGATAAAAAAATAAATAA
Found at i:939544 original size:18 final size:18
Alignment explanation
Indices: 939521--939577 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
939511 AAGATGCAAT
939521 AATGAAGAAAATAAATAA
1 AATGAAGAAAATAAATAA
*
939539 AATGAAGAACATAATATAA
1 AATGAAGAAAATAA-ATAA
* *
939558 TATG-ATAAAATAAATAA
1 AATGAAGAAAATAAATAA
939575 AAT
1 AAT
939578 AGAAACAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
17 6 0.18
18 20 0.61
19 7 0.21
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
AATGAAGAAAATAAATAA
Found at i:940359 original size:22 final size:21
Alignment explanation
Indices: 940324--940367 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
940314 AGTGTGATGG
940324 TTGTGGTTCTTTGTGTACTCGA
1 TTGTGGTTCTTTGT-TACTCGA
*
940346 TTGTGG-TCTGTTGTTTCTCGA
1 TTGTGGTTCT-TTGTTACTCGA
940367 T
1 T
940368 GTACTGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.07, C:0.14, G:0.27, T:0.52
Consensus pattern (21 bp):
TTGTGGTTCTTTGTTACTCGA
Found at i:940720 original size:11 final size:11
Alignment explanation
Indices: 940706--940730 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
940696 AGAAATAAAG
940706 AAATAATAATA
1 AAATAATAATA
940717 AAATAATAATA
1 AAATAATAATA
940728 AAA
1 AAA
940731 ATGTTCAAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAATAATA
Found at i:940879 original size:27 final size:25
Alignment explanation
Indices: 940843--940898 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
940833 GTTTTTTTAA
940843 AAAACCATATAACATATAAATGTTTTC
1 AAAACCATATAACATATAAA--TTTTC
* **
940870 AAAACTATATATTATATAAATTTTC
1 AAAACCATATAACATATAAATTTTC
940895 AAAA
1 AAAA
940899 ATGTTTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
27 17 0.65
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.36
Consensus pattern (25 bp):
AAAACCATATAACATATAAATTTTC
Found at i:940902 original size:37 final size:36
Alignment explanation
Indices: 940860--941027 Score: 156
Period size: 37 Copynumber: 4.8 Consensus size: 36
940850 TATAACATAT
*
940860 AAATGTTTTCAAAACTATATATTATATAAATTTTCAA
1 AAATGTTTTAAAAACTATATATTATATAAA-TTTCAA
* *
940897 AAATGTTTTCAAAATTATATATTATAT-AATTTCAA
1 AAATGTTTTAAAAACTATATATTATATAAATTTCAA
* *
940932 AAATGATTTT-AAAA-T-TATATTATCTATATTTCTAA
1 AAATG-TTTTAAAAACTATATATTATATAAATTTC-AA
* * *
940967 AACGTTTTTTAAAAACTGTATATTATAGT---TTTC-A
1 AA-ATGTTTTAAAAACTATATATTATA-TAAATTTCAA
941001 AAATGTTTTAAAAACTAT-TATTATATA
1 AAATGTTTTAAAAACTATATATTATATA
941028 CGTATTTTCA
Statistics
Matches: 113, Mismatches: 9, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
31 1 0.01
32 7 0.06
33 22 0.19
34 9 0.08
35 23 0.20
36 15 0.13
37 27 0.24
38 8 0.07
39 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (36 bp):
AAATGTTTTAAAAACTATATATTATATAAATTTCAA
Found at i:940930 original size:35 final size:34
Alignment explanation
Indices: 940785--941027 Score: 150
Period size: 37 Copynumber: 7.0 Consensus size: 34
940775 ACGTATTTTC
*
940785 AATTT-AAAAATGTTTTAAAAGTTATATATTATAT
1 AATTTCAAAAATGTTTTAAAA-CTATATATTATAT
* **
940819 ATATTTTCAAAAATGTTTTTTTAAA--A-A-ACCATAT
1 A-A-TTTCAAAAATG--TTTTAAAACTATATATTATAT
** *
940853 AACAT-ATAAATGTTTTCAAAACTATATATTATAT
1 AATTTCAAAAATGTTTT-AAAACTATATATTATAT
*
940887 AAATTTTCAAAAATGTTTTCAAAATTATATATTATAT
1 -AA-TTTCAAAAATGTTTT-AAAACTATATATTATAT
*
940924 AATTTCAAAAATGATTTTAAAA-T-TATATTATCT
1 AATTTCAAAAATG-TTTTAAAACTATATATTATAT
* * *
940957 ATATTTCTAAAACGTTTTTTAAAAACTGTATATTATAGT
1 A-ATTTC-AAAA-ATGTTTT-AAAACTATATATTATA-T
940996 --TTTC-AAAATGTTTTAAAAACTAT-TATTATAT
1 AATTTCAAAAATGTTTT-AAAACTATATATTATAT
941027 A
1 A
941028 CGTATTTTCA
Statistics
Matches: 167, Mismatches: 20, Indels: 46
0.72 0.09 0.20
Matches are distributed among these distances:
29 4 0.02
30 3 0.02
31 7 0.04
32 9 0.05
33 25 0.15
34 21 0.13
35 27 0.16
36 20 0.12
37 35 0.21
38 8 0.05
39 8 0.05
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (34 bp):
AATTTCAAAAATGTTTTAAAACTATATATTATAT
Found at i:941023 original size:70 final size:69
Alignment explanation
Indices: 940860--941027 Score: 164
Period size: 70 Copynumber: 2.4 Consensus size: 69
940850 TATAACATAT
* *
940860 AAATGTTTTCAAAACTATATATTATATAAATTTTCAAAAATGTTTTCAAAATTATATATTATATA
1 AAATGTTTT-AAAACTAT-TATTATATAAATTTTCAAAAATGTTTTAAAAACTATATATTATAT-
940925 ATTTCAA
63 ATTTCAA
* * * * * *
940932 AAATGATTTTAAAATTA-TATTATCTATA-TTTCTAAAACGTTTTTTAAAAACTGTATATTATAG
1 AAATG-TTTTAAAACTATTATTATATAAATTTTC-AAAA-ATGTTTTAAAAACTATATATTATA-
940995 T-TTTC-A
62 TATTTCAA
941001 AAATGTTTTAAAAACTATTATTATATA
1 AAATGTTTT-AAAACTATTATTATATA
941028 CGTATTTTCA
Statistics
Matches: 80, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
68 4 0.05
69 16 0.20
70 25 0.31
71 19 0.24
72 12 0.15
73 4 0.05
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (69 bp):
AAATGTTTTAAAACTATTATTATATAAATTTTCAAAAATGTTTTAAAAACTATATATTATATATT
TCAA
Found at i:941036 original size:37 final size:36
Alignment explanation
Indices: 940860--941039 Score: 144
Period size: 35 Copynumber: 5.0 Consensus size: 36
940850 TATAACATAT
* *
940860 AAATGTTTTCAAAACTATATATTATATAAATTTTCAA
1 AAATGTTTTAAAAACTAT-TATTATATATATTTTCAA
* *
940897 AAATGTTTTCAAAATTATATATTATATA-A-TTTCAA
1 AAATGTTTTAAAAACTAT-TATTATATATATTTTCAA
* *
940932 AAATGATTTT-AAAATTA-TATTATCTATA-TTTCTAA
1 AAATG-TTTTAAAAACTATTATTATATATATTTTC-AA
* * *
940967 AACGTTTTTTAAAAACT-GTA-TAT-TATAGTTTTC-A
1 AA-ATGTTTTAAAAACTATTATTATATATA-TTTTCAA
941001 AAATGTTTTAAAAACTATTATTATATACGTATTTTCAA
1 AAATGTTTTAAAAACTATTATTATATA--TATTTTCAA
941039 A
1 A
941040 GACGAAAAAT
Statistics
Matches: 121, Mismatches: 8, Indels: 27
0.78 0.05 0.17
Matches are distributed among these distances:
33 20 0.17
34 14 0.12
35 32 0.26
36 19 0.16
37 32 0.26
38 4 0.03
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (36 bp):
AAATGTTTTAAAAACTATTATTATATATATTTTCAA
Found at i:941793 original size:84 final size:84
Alignment explanation
Indices: 941525--943114 Score: 1743
Period size: 84 Copynumber: 19.1 Consensus size: 84
941515 TTATTGACAT
* * * * * *
941525 ATAACCCTTCTTGCCTTGAGCTATGCTGTAAATGATGTGCCTTGGAGTTGAGCGTAGTCGAACTC
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
*
941590 AAAGGTCTTT--TTGTGACAG
66 GAAGGTCTTTGGTTG-G-CAG
* * * * * * * * * *
941609 ATAACACTTCTAGCCTTGAGTTATGCTGTAAATGATGTACCCTCGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTAGTCGAACT
**
941674 CGGGGGTC--T--TTGGCAG
65 CGAAGGTCTTTGGTTGGCAG
* * * *
941690 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTGGTCGAACTC
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
941755 GAAGGTCTTTGGTTGGCAG
66 GAAGGTCTTTGGTTGGCAG
* * * * *
941774 ATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
** *
941839 CGGGGGTCTTTGG-TGACAG
65 CGAAGGTCTTTGGTTGGCAG
* * * *
941858 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACT
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACT
* * **
941922 CAAAGGACTTTTGG-TCACAG
65 CGAAGGTC-TTTGGTTGGCAG
*** * * * * * *
941942 ATAACCCTTCTATCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
*
942007 C-AGGGGTC--T--TTGGCAG
65 CGA-AGGTCTTTGGTTGGCAG
* *
942023 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCATAGTCGAACT
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACT
* *
942087 CAAAGGTCTTTTGTTGGCAG
65 CGAAGGTCTTTGGTTGGCAG
* * * *
942107 ACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
942172 GAAGGTCTTTGGTTGGCAG
66 GAAGGTCTTTGGTTGGCAG
*
942191 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
942256 GAAGGTCTTTGGTTGGCAG
66 GAAGGTCTTTGGTTGGCAG
* * *
942275 ACAACCCTTCTCGACTTCAGGTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
942340 GAAGGTCTTTGGTTGGCAG
66 GAAGGTCTTTGGTTGGCAG
* * * * *
942359 ACAACCCTTCTCGACTTCAAG-TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
1 ATAACCCTTCTCGACTT-AAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAAC
**
942423 TCGGGGGTC--T--TTGGCAG
64 TCGAAGGTCTTTGGTTGGCAG
* *
942440 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACT
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACT
* *
942504 CAAAGGTCTTTTGTTGGCAG
65 CGAAGGTCTTTGGTTGGCAG
* * * *
942524 ACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
942589 GAAGGTCTTTGGTTGGCAG
66 GAAGGTCTTTGGTTGGCAG
* *
942608 ATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
942673 GAAGGTCTTTGGTTGGCAG
66 GAAGGTCTTTGGTTGGCAG
* * *
942692 ACAACCCTTCTCGACTTCAGGTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
942757 GAAGGTCTTTGGTTGGCAG
66 GAAGGTCTTTGGTTGGCAG
* * * * * * * *
942776 ACAACCCTTCTCGACTTCAGGTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
**
942841 CGGGGGTC--T--TTGGCAG
65 CGAAGGTCTTTGGTTGGCAG
* * * *
942857 ATAGCCCTTCTCGACTTAAGCTATTCTGGAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACT
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACT
* * **
942921 CAAAGGACTTTTGG-TCACAG
65 CGAAGGTC-TTTGGTTGGCAG
* *** * * * * * * *
942941 ATAACCCTTATATCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
** *
943006 CG--GGGGTAT--TTGGCAG
65 CGAAGGTCTTTGGTTGGCAG
* *
943022 ATAGCCCTTCTCGACTTAAGTTATGCTGCAAATAATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
*
943087 AAAGGTCTTT-G-TGGCAG
66 GAAGGTCTTTGGTTGGCAG
* *
943104 GTAGCCCTTCT
1 ATAACCCTTCT
943115 GGCCTTGAGC
Statistics
Matches: 1280, Mismatches: 185, Indels: 84
0.83 0.12 0.05
Matches are distributed among these distances:
80 121 0.09
81 187 0.15
82 27 0.02
83 36 0.03
84 754 0.59
85 155 0.12
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (84 bp):
ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTGGTTGGCAG
Found at i:942106 original size:417 final size:416
Alignment explanation
Indices: 941527--943097 Score: 2140
Period size: 417 Copynumber: 3.8 Consensus size: 416
941517 ATTGACATAT
* * * * * * * *
941527 AACCCTTCTTGCCTTGAGCTATGCTGTAAATGATGTG-CCTTGGAGTTGAGCGTAGTCGAACTCA
1 AACCCTTCTCGACTTGAG-TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCA
** * * * * * * * * *
941591 AAGGTCTTTTTGTGACAGATAACACTTCTAGCCTTGAGTTATGCTGTAAATGATGTACCCTCGAA
65 GGGGTC--TTTG-G-CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG-A
* * *** * * * *
941656 GCTGAGTGTAATCGAACTCGGGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
125 GCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCT
*
941717 GCAAATGATATGCCTTGGAGCTGAGCGTGGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCT
190 GCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCT
* * * * * * **
941782 TCTCGATTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC
255 TCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* * * * * * *
941847 TTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTT-GAGCTGAG
319 TTTGGTTGGCAGACAACCCTTCTCGACTTCAGGTATGCTGCAAATGATGTGCC-TTGGAGCTGAG
* * ** *
941910 CGTAGTCGAACTCAAAGGACTTTTGG-TCACAGAT
383 CGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGAC
*** *
941944 AACCCTTCTATCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCA
1 AACCCTTCTCGACTTGAG-TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCA
942009 GGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGA
65 GGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGA
* *
942074 GCATAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAA
130 GCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAA
942139 TGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG
195 TGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG
942204 ACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
260 ACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
942269 TGGCAGACAACCCTTCTCGACTTCAGGTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
325 TGGCAGACAACCCTTCTCGACTTCAGGTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
942334 GAACTCGAAGGTCTTTGGTTGGCAGAC
390 GAACTCGAAGGTCTTTGGTTGGCAGAC
* *
942361 AACCCTTCTCGACTTCAAGTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
1 AACCCTTCTCGACTT-GAGTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCA
*
942426 GGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGA
65 GGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGA
*
942491 GCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAA
130 GCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAA
942556 TGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG
195 TGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG
*
942621 ACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
260 ACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
942686 TGGCAGACAACCCTTCTCGACTTCAGGTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
325 TGGCAGACAACCCTTCTCGACTTCAGGTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
942751 GAACTCGAAGGTCTTTGGTTGGCAGAC
390 GAACTCGAAGGTCTTTGGTTGGCAGAC
* * *
942778 AACCCTTCTCGACTTCAGGTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
1 AACCCTTCTCGACTTGA-GTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCA
* * *
942843 GGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGGAAATGATGTGCCGTTGAGCTGA
65 GGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGA
* * ** * * ** * * *
942908 GCGTAGTCGAACTCAAAGGACTTTTGGTCACAGATAACCCTTATATCCTTGAGTTATGTTGTAAA
130 GCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAA
* * * * * ** * *
942973 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG--GGGGTAT--TTGGCAGATAGCCCTTCTC
195 TGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTC
* * *
943034 GACTTAAGTTATGCTGCAAATAATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
259 GACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG
943098 TGGCAGGTAG
Statistics
Matches: 1054, Mismatches: 89, Indels: 25
0.90 0.08 0.02
Matches are distributed among these distances:
413 21 0.02
414 117 0.11
415 1 0.00
416 49 0.05
417 815 0.77
418 51 0.05
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (416 bp):
AACCCTTCTCGACTTGAGTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCAG
GGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAG
CGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAAT
GATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGA
CTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTT
GGCAGACAACCCTTCTCGACTTCAGGTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
AACTCGAAGGTCTTTGGTTGGCAGAC
Found at i:942136 original size:333 final size:332
Alignment explanation
Indices: 941519--943103 Score: 1885
Period size: 333 Copynumber: 4.8 Consensus size: 332
941509 ACAATTTTAT
* * * * * * *
941519 TGACATATAACCCTTCTTGCCTTGAGCTATGCTGTAAATGATGTGCCTTGGAGTTGAGCGTAGTC
1 TGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* * *
941584 GAACTCAAAGGTCTTTTTGTGACAGATAACACTTCTAGCCTTGAGTTATGCTGTAAATGATGTAC
66 GAACTCAAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
*
941649 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
131 CCTCGAAGCTGAGTGTAATCGAACTC-GGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTAT
* * * *
941714 GCTGCAAATGATATGCCTTGGAGCTGAGCGTGGTCGAACTCGAAGGTCTTTGGTTGGCAGATAAC
195 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGACAAC
* * **
941779 CCTTCTCGATTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGG
260 CCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAG
941844 GTCTTTGG
325 GTCTTTGG
* * *
941852 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAGT
1 TGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGT
* * *
941916 CGAACTCAAAGGACTTTTGGTCACAGATAACCCTTCTATCCTTGAGTTATGCTGTAAATGATGTG
65 CGAACTCAAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
941981 CCCTCGAAGCTGAGTGTAATCGAACTCAGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTA
130 CCCTCGAAGCTGAGTGTAATCGAACTC-GGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTA
* *
942046 TGCTGCAAATGATGTGCCGTT-GAGCTGAGCATAGTCGAACTCAAAGGTCTTTTGTTGGCAGACA
194 TGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGACA
* * * * * *
942110 ACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGA
258 ACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGA
942174 AGGTCTTTGG
323 AGGTCTTTGG
* * *
942184 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
1 -TGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * * * * * * *
942249 CGAACTCGAAGGTC-TTTGGTTGGCAGACAACCCTTCTCGACTTCAGGTATGCTGCAAATGATGT
65 CGAACTCAAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
* * * * * *
942313 G-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGACAACCCTTCTCGACTTC
129 GCCCTCGAAGCTGAGTGTAATCGAACTCG-GGGTC--T--TTGGCAGATAACCCTTCTCGACTT-
* * * * **
942377 AAG-TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC---T-TTGG
188 AAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGG
* * * * * *
942437 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGA
252 CAGACAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAATCGA
* *
942501 ACTCAAAGGTCTTTTGT
317 ACTCGAAGGTC-TTTGG
* * * *
942518 TGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTC
1 TGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* * * * * ** *
942583 GAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATG
66 GAACTCAAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
* * * * * * *
942647 -CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGACAACCCTTCTCGACTTCA
130 CCCTCGAAGCTGAGTGTAATCGAACTCG-GGGTC--T--TTGGCAGATAACCCTTCTCGACTTAA
* *
942711 GGTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
190 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAG
* * * *
942776 ACAACCCTTCTCGACTTCAGGTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
255 ACAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACT
**
942841 CGGGGGTCTTT-G
320 CGAAGGTCTTTGG
* * * * *
942853 -G-CAGATAGCCCTTCTCGACTTAAGCTATTCTGGAAATGATGTGCCGTT-GAGCTGAGCGTAGT
1 TGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGT
* * * * *
942915 CGAACTCAAAGGACTTTTGGTCACAGATAACCCTTATATCCTTGAGTTATGTTGTAAATGATGTG
65 CGAACTCAAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
* * *
942980 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTATTTGGCAGATAGCCCTTCTCGACTTAAGTTA
130 CCCTCGAAGCTGAGTGTAATCGAACTC-GGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTA
* *
943045 TGCTGCAAATAATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTG-TGGCAG
194 TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAG
943104 GTAGCCCTTC
Statistics
Matches: 1096, Mismatches: 131, Indels: 55
0.85 0.10 0.04
Matches are distributed among these distances:
328 6 0.01
329 3 0.00
330 73 0.07
331 1 0.00
332 95 0.09
333 732 0.67
334 47 0.04
335 1 0.00
336 90 0.08
337 48 0.04
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (332 bp):
TGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
GAACTCAAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
CCTCGAAGCTGAGTGTAATCGAACTCGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATG
CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGACAACC
CTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGG
TCTTTGG
Found at i:947985 original size:30 final size:30
Alignment explanation
Indices: 947945--948006 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
947935 AAATAAAAGG
* *
947945 AAAAATGGAATAAG-TAAAACAGTAAATAA
1 AAAAATGGAATAAGATAAAAAAATAAATAA
947974 AAAAGATGGAATAAGATAAAAAAATAAATAA
1 AAAA-ATGGAATAAGATAAAAAAATAAATAA
948005 AA
1 AA
948007 GAAAAGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 4 0.14
30 10 0.34
31 15 0.52
ACGTcount: A:0.69, C:0.02, G:0.13, T:0.16
Consensus pattern (30 bp):
AAAAATGGAATAAGATAAAAAAATAAATAA
Found at i:948892 original size:22 final size:21
Alignment explanation
Indices: 948857--948900 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
948847 AGTGTGATGG
948857 TTGTGGTTCTTTGTGTACTCGA
1 TTGTGGTTCTTTGT-TACTCGA
*
948879 TTGTGG-TCTGTTGTTTCTCGA
1 TTGTGGTTCT-TTGTTACTCGA
948900 T
1 T
948901 GTACTGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.07, C:0.14, G:0.27, T:0.52
Consensus pattern (21 bp):
TTGTGGTTCTTTGTTACTCGA
Found at i:949264 original size:12 final size:12
Alignment explanation
Indices: 949243--949274 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
949233 ATAAATTAGA
*
949243 AATAATAATAAT
1 AATAAAAATAAT
949255 AATAAAAATAAT
1 AATAAAAATAAT
949267 AATAAAAA
1 AATAAAAA
949275 ATGTTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:949362 original size:38 final size:38
Alignment explanation
Indices: 949300--949654 Score: 226
Period size: 38 Copynumber: 9.2 Consensus size: 38
949290 TAATATATAA
** *
949300 ATTTTCAAAATAT-TTTTTTTAAACTATATATTATACGT
1 ATTTTCAAAA-ATGTTTTTAAAAACTATATATTATACAT
* ** * **
949338 ATTTTCAAAAACGTTTCAAAAAACTATATAATATATGT
1 ATTTTCAAAAATGTTTTTAAAAACTATATATTATACAT
* ** *
949376 ATTTTTTAAAAATG-TTTTAAAAGTTATATATTATATAT
1 A-TTTTCAAAAATGTTTTTAAAAACTATATATTATACAT
* * *
949414 ATTTTCAAAAATGTTTTTTTAAAAAACCATATAACATATAAAT
1 ATTTTCAAAAATG--TTTTT-AAAAACTATAT-A-TTATACAT
* * * * *
949457 GTTTTC-AAAAT-ATTTTCAAAACTATATATTATATAA
1 ATTTTCAAAAATGTTTTTAAAAACTATATATTATACAT
* * *
949493 ATTTTCAAAAATG-TTTTCAAAATTATATATTATATA-
1 ATTTTCAAAAATGTTTTTAAAAACTATATATTATACAT
* * *
949529 AGATTTCAAAAATGATTTTAAAAATTATATATTAT-CTAT
1 A-TTTTCAAAAATGTTTTTAAAAACTATATATTATAC-AT
* * *
949568 ATTTTCTAAAACGTTTTTTTAAAAACTCTATATTAT--AT
1 ATTTTC-AAAA-ATGTTTTTAAAAACTATATATTATACAT
* *
949606 AGTTTTCAAAAAT-ATTTTAAAAACTATATATTATATACGT
1 A-TTTTCAAAAATGTTTTTAAAAACTATATA-T-TATACAT
949646 ATTTTCAAA
1 ATTTTCAAA
949655 TATCGTTTGC
Statistics
Matches: 253, Mismatches: 43, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
36 26 0.10
37 53 0.21
38 92 0.36
39 32 0.13
40 25 0.10
41 8 0.03
42 6 0.02
43 11 0.04
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (38 bp):
ATTTTCAAAAATGTTTTTAAAAACTATATATTATACAT
Found at i:950064 original size:23 final size:23
Alignment explanation
Indices: 950012--950065 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
950002 TCTAAATGTT
*
950012 ATTTTTAAATTGTATTTAAACAA
1 ATTTTTAAATTATATTTAAACAA
** * *
950035 ACATTTATATTATATTTAAATAA
1 ATTTTTAAATTATATTTAAACAA
950058 ATTTTTAA
1 ATTTTTAA
950066 TTGTTATAAA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTTTTAAATTATATTTAAACAA
Found at i:951361 original size:39 final size:40
Alignment explanation
Indices: 951307--951385 Score: 126
Period size: 39 Copynumber: 2.0 Consensus size: 40
951297 TACATGCTAC
951307 ATGGGACAGGCATAAGATGGTTTACCA-TTTCGTTGATCA
1 ATGGGACAGGCATAAGATGGTTTACCATTTTCGTTGATCA
*
951346 ATGGGACAAGG-ATAAGATGGTTTCCCATTTTCGTTGATCA
1 ATGGGAC-AGGCATAAGATGGTTTACCATTTTCGTTGATCA
951386 GTAAATAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
39 22 0.59
40 15 0.41
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (40 bp):
ATGGGACAGGCATAAGATGGTTTACCATTTTCGTTGATCA
Found at i:954256 original size:2 final size:2
Alignment explanation
Indices: 954249--954282 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
954239 CAATGGAGGC
954249 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
954283 GGGTGTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:954652 original size:11 final size:10
Alignment explanation
Indices: 954636--954669 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
954626 AATTGAACAT
954636 ATAAACGAAC
1 ATAAACGAAC
954646 GATAAACGAAC
1 -ATAAACGAAC
954657 ACTAAACGAAC
1 A-TAAACGAAC
954668 AT
1 AT
954670 GCTCGTGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.09
11 20 0.91
ACGTcount: A:0.56, C:0.21, G:0.12, T:0.12
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:954679 original size:23 final size:23
Alignment explanation
Indices: 954653--954732 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
954643 AACGATAAAC
* *
954653 GAACACTAAACGAACATGCTCGT
1 GAACAATAAACGAACATGTTCGT
** * *
954676 GAACGCTAAATGAACACT-TTCAT
1 GAACAATAAACGAACA-TGTTCGT
954699 GAACATATAAACGAACATGTTCGT
1 GAACA-ATAAACGAACATGTTCGT
954723 GAACAATAAA
1 GAACAATAAA
954733 TAAACGAACA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
23 27 0.59
24 19 0.41
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (23 bp):
GAACAATAAACGAACATGTTCGT
Found at i:954714 original size:24 final size:27
Alignment explanation
Indices: 954682--954743 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 27
954672 TCGTGAACGC
*
954682 TAAATGAACACT-TTCATGAAC-AT-A
1 TAAACGAACACTGTTCATGAACAATAA
*
954706 TAAACGAACA-TGTTCGTGAACAATAAA
1 TAAACGAACACTGTTCATGAACAAT-AA
954733 TAAACGAACAC
1 TAAACGAACAC
954744 GAATATCTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 1 0.03
24 17 0.55
25 2 0.06
27 11 0.35
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (27 bp):
TAAACGAACACTGTTCATGAACAATAA
Found at i:957148 original size:25 final size:25
Alignment explanation
Indices: 957120--957182 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
957110 AATATTTTAT
957120 ATATAAT-TAATATAAAAAATATAAA
1 ATATAATAT-ATATAAAAAATATAAA
* **
957145 ATATTATATATATAATTAATATAAA
1 ATATAATATATATAAAAAATATAAA
* *
957170 AAATATTATATAT
1 ATATAATATATAT
957183 TATATATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATAATATATATAAAAAATATAAA
Found at i:957155 original size:34 final size:34
Alignment explanation
Indices: 957108--957192 Score: 143
Period size: 34 Copynumber: 2.5 Consensus size: 34
957098 CCCGAACCCG
*
957108 AAAATATTTTATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
957142 AAAATATTATATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
* *
957176 TATATATTATATATATA
1 AAAATATTATATATATA
957193 TATATATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAT
Found at i:959329 original size:2 final size:2
Alignment explanation
Indices: 959322--959351 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
959312 ATTTCGTTAA
959322 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
959352 CGTAATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:960366 original size:15 final size:15
Alignment explanation
Indices: 960348--960379 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
960338 CGACGAGGAA
*
960348 GAGGTAGAGGAAAGT
1 GAGGGAGAGGAAAGT
960363 GAGGGAGAGGAAAGT
1 GAGGGAGAGGAAAGT
960378 GA
1 GA
960380 AGGTGAAGGA
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:0.41, C:0.00, G:0.50, T:0.09
Consensus pattern (15 bp):
GAGGGAGAGGAAAGT
Found at i:960385 original size:21 final size:21
Alignment explanation
Indices: 960356--960403 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
960346 AAGAGGTAGA
* *
960356 GGAAAGTGAGGGAGAGGAAAG
1 GGAAGGTGAAGGAGAGGAAAG
* *
960377 TGAAGGTGAAGGAGAGGAGAG
1 GGAAGGTGAAGGAGAGGAAAG
960398 GGAAGG
1 GGAAGG
960404 GATGAAGAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.54, T:0.06
Consensus pattern (21 bp):
GGAAGGTGAAGGAGAGGAAAG
Found at i:961920 original size:22 final size:22
Alignment explanation
Indices: 961895--961941 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
961885 TTATCTGTTC
*
961895 GTCTAAATTATTTTCTTGGCGT
1 GTCTAAATTATTTTCTTGGCAT
961917 GTCTAAATTATTTTCTTGGCAT
1 GTCTAAATTATTTTCTTGGCAT
961939 GTC
1 GTC
961942 GGCATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (22 bp):
GTCTAAATTATTTTCTTGGCAT
Found at i:968291 original size:99 final size:97
Alignment explanation
Indices: 968122--968311 Score: 335
Period size: 99 Copynumber: 1.9 Consensus size: 97
968112 TTACGAGGAG
*
968122 GAAGTGAAGAATGTGAGGTTGAAGATACGACAAAGGTGGTTGCATTATGGGGCTAGTGTCCCTCT
1 GAAGTGAAGAATGTGAGGCTGAAGATACGACAAAGGTGGTTGCATTATGGGGCTAGTGTCCCTCT
968187 AATAAGACACTTAAATTGTGGGTTTCGATGAT
66 AATAAGACACTTAAATTGTGGGTTTCGATGAT
* *
968219 GAAGTGAAGAATGTGAGGCTGAAGATACACGGCAAAGGTTGTTGCATTATGGGGCTAGTGTCCCT
1 GAAGTGAAGAATGTGAGGCTGAAGAT--ACGACAAAGGTGGTTGCATTATGGGGCTAGTGTCCCT
968284 CTAATAAGACACTTAAATTGTGGGTTTC
64 CTAATAAGACACTTAAATTGTGGGTTTC
968312 ATAGGAGGGT
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
97 25 0.28
99 63 0.72
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.28
Consensus pattern (97 bp):
GAAGTGAAGAATGTGAGGCTGAAGATACGACAAAGGTGGTTGCATTATGGGGCTAGTGTCCCTCT
AATAAGACACTTAAATTGTGGGTTTCGATGAT
Found at i:973068 original size:240 final size:240
Alignment explanation
Indices: 972645--973100 Score: 684
Period size: 240 Copynumber: 1.9 Consensus size: 240
972635 AATGCCTGCA
* ** * **
972645 GTTACAGATGATAATGTAGTTCATCATCTATCTATGGTTGAATCCTCTGCCTCATCCAATATCAT
1 GTTACAGATGATAATGCAGACCATCATCCATCTATAATTGAATCCTCTGCCTCATCCAATATCAT
* *
972710 TTCTAGCAATGGAATCTCCACGAGTTTACCTGATCCATATCCCTCACAGAATCCTCCCATTGAAC
66 TTCTAGCAATGGAATCTCCACGAGTTTACCTGAACCATATCCCTCACAGAATCCTCCCACTGAAC
*
972775 AGATGTTGCAACTCTCGGGGAAATCTTCTGATCCTGACAATTTACCCAGTACAGATTTATACACA
131 AGATGTTGCAACTCTCAGGGAAATCTTCTGATCCTGACAATTTACCCAGTACAGATTTATACACA
972840 AGTGATGAAATTCATAATATTCACCCAGTACAGATGTTGCCTAAG
196 AGTGATGAAATTCATAATATTCACCCAGTACAGATGTTGCCTAAG
972885 GTTACAGATGATAATGCAGACCATCATCCAT-TAATAATTGAATCCTCTGCCTCATCCAATATCA
1 GTTACAGATGATAATGCAGACCATCATCCATCT-ATAATTGAATCCTCTGCCTCATCCAATATCA
* * * * * * *
972949 TTTC-AGGCATTGGGATCTCCACGAGTTTACCTGAACTATCTCCCTCAGAGAAAT-TTTCCACTG
65 TTTCTA-GCAATGGAATCTCCACGAGTTTACCTGAACCATATCCCTCACAG-AATCCTCCCACTG
** *
973012 AACAGATGTTGCAGTTCTCAGGGAAATCTTCTGATCCTGACAATTTACCCAGTACAGATTTATGC
128 AACAGATGTTGCAACTCTCAGGGAAATCTTCTGATCCTGACAATTTACCCAGTACAGATTTATAC
*
973077 ACGAGTGATGAAATTCATAATATT
193 ACAAGTGATGAAATTCATAATATT
973101 TCACTAGTGG
Statistics
Matches: 193, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
239 2 0.01
240 188 0.97
241 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (240 bp):
GTTACAGATGATAATGCAGACCATCATCCATCTATAATTGAATCCTCTGCCTCATCCAATATCAT
TTCTAGCAATGGAATCTCCACGAGTTTACCTGAACCATATCCCTCACAGAATCCTCCCACTGAAC
AGATGTTGCAACTCTCAGGGAAATCTTCTGATCCTGACAATTTACCCAGTACAGATTTATACACA
AGTGATGAAATTCATAATATTCACCCAGTACAGATGTTGCCTAAG
Found at i:979914 original size:22 final size:23
Alignment explanation
Indices: 979874--979921 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
979864 ATACAATAAA
979874 TAATATTATTAATCATAAAAT-T
1 TAATATTATTAATCATAAAATAT
* **
979896 TAATATTATTATTTTTAAAATAT
1 TAATATTATTAATCATAAAATAT
979919 TAA
1 TAA
979922 AATAATATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATATTATTAATCATAAAATAT
Found at i:981590 original size:35 final size:35
Alignment explanation
Indices: 981544--981619 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
981534 AAAACAGTCC
* *
981544 TCAATTTCATTCTAAATCCC-AATTTCCAAAGTAAT
1 TCAATTTCATTCTAAA-CCCTAAATTCCAAAATAAT
981579 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
981614 TCAATT
1 TCAATT
981620 AAATTCAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 3 0.08
35 35 0.92
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
Found at i:982162 original size:130 final size:130
Alignment explanation
Indices: 982016--982263 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
982006 TATTTATATA
* **
982016 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATAATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATAATTTAACCAGGATCTGACATGTG
* *
982081 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
*
982146 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATAATTTAACCAGGATCTGACATGTG
* * *
982211 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
982264 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATAATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:982294 original size:130 final size:129
Alignment explanation
Indices: 982030--982294 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
982020 ATTTGGTCCT
* ** *
982030 AAATTAAATAGAATTTAATAAATTAATAATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATAATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
982095 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAACAAGT-CA
*
982160 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATAATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
982225 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAACAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAACAAGT
982289 -A
128 CA
982290 AAATT
1 AAATT
982295 TGGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATAATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAACAAGTCA
Found at i:982638 original size:28 final size:27
Alignment explanation
Indices: 982607--982669 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
982597 AGTTGATACA
*
982607 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
982635 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
982663 ATATTTT
1 ATATTTT
982670 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:982770 original size:16 final size:18
Alignment explanation
Indices: 982749--982782 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
982739 ATTTCTTATT
982749 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
982765 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
982783 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:988497 original size:38 final size:37
Alignment explanation
Indices: 988441--988576 Score: 106
Period size: 37 Copynumber: 3.7 Consensus size: 37
988431 TTGCAAATTG
*
988441 TTTTTGAAAATACATATATAATATATAGTCTAAAACAT-
1 TTTTTGAAAATA-TTATATAATATATAGTCTAAAA-ATA
* *
988479 TTTTTGAAAATATGTATAT--TATATAGTTTTTAAAATA
1 TTTTTGAAAATAT-TATATAATATATAG-TCTAAAAATA
* * **
988516 TTTTTG-AAA-ATTATATAATATATAGTTTTTGAAAACG
1 TTTTTGAAAATATTATATAATATATAG--TCTAAAAATA
988553 TTTTT-AAAATA-TATATAATATATA
1 TTTTTGAAAATATTATATAATATATA
988577 CTTTTGAAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 17
0.79 0.06 0.16
Matches are distributed among these distances:
34 5 0.06
35 2 0.02
36 19 0.23
37 40 0.48
38 18 0.21
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (37 bp):
TTTTTGAAAATATTATATAATATATAGTCTAAAAATA
Found at i:988538 original size:36 final size:37
Alignment explanation
Indices: 988441--988779 Score: 207
Period size: 38 Copynumber: 8.8 Consensus size: 37
988431 TTGCAAATTG
*
988441 TTTTTGAAAATACATATATAATATATAG--TCTAAAACA
1 TTTTTGAAAAT--ATATATAATATATAGTTTTTAAAACA
* * *
988478 TTTTTTGAAAATATGTATATTATATAGTTTTTAAAATA
1 -TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
*
988516 TTTTTGAAAAT-TATATAATATATAGTTTTTGAAAACG
1 TTTTTGAAAATATATATAATATATAGTTTTT-AAAACA
* *
988553 TTTTT-AAAATATATATAATATATACTTTTGAAAAC-
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
* * * *
988588 GTTATGAAAACATTTATATAATATA-A-TTTTAAAAACCA
1 TTTTTG-AAA-ATATATATAATATATAGTTTTTAAAA-CA
*
988626 -TTTTGAAAATATATTTTTGAAATTATATAATATATAGTTTTTGAAA-A
1 TTTTTG--AA-A-A----T---A-TATATAATATATAGTTTTTAAAACA
* * *
988673 CGTTTT-AAAATATATATAATATATACTTTTGAAAAC-
1 -TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
* * * *
988709 GTTATGAAAACATTTATATAATATATAATTTTTAAAAACCA
1 TTTTTG-AAA-ATATATATAATATATAGTTTTT-AAAA-CA
988750 -TTTTGAAAATATATATAATATATAGTTTTT
1 TTTTTGAAAATATATATAATATATAGTTTTT
988780 TTAAAAAAAC
Statistics
Matches: 242, Mismatches: 29, Indels: 60
0.73 0.09 0.18
Matches are distributed among these distances:
35 7 0.03
36 68 0.28
37 50 0.21
38 73 0.30
39 9 0.04
40 6 0.02
43 1 0.00
44 1 0.00
45 1 0.00
46 2 0.01
47 12 0.05
48 1 0.00
49 11 0.05
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
Found at i:988637 original size:121 final size:122
Alignment explanation
Indices: 988505--988761 Score: 448
Period size: 121 Copynumber: 2.1 Consensus size: 122
988495 TATTATATAG
*
988505 TTTTTAAAATATTTTTGAAAATTATATAATATATAGTTTTTGAAAACGTTTTTAAAATATATATA
1 TTTTGAAAATATTTTTG-AAATTATATAATATATAGTTTTTGAAAACG-TTTTAAAATATATATA
988570 ATATATACTTTTGAAAACGTTATGAAAACATTTATAT-A-ATATAA-TTTTAAAAACCA
64 ATATATACTTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCA
988626 TTTTGAAAATATATTTTTGAAATTATATAATATATAGTTTTTGAAAACGTTTTAAAATATATATA
1 TTTTG-AAA-ATATTTTTGAAATTATATAATATATAGTTTTTGAAAACGTTTTAAAATATATATA
988691 ATATATACTTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCA
64 ATATATACTTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCA
988750 TTTTGAAAATAT
1 TTTTGAAAATAT
988762 ATATAATATA
Statistics
Matches: 130, Mismatches: 1, Indels: 9
0.93 0.01 0.06
Matches are distributed among these distances:
121 57 0.44
122 38 0.29
123 18 0.14
124 17 0.13
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (122 bp):
TTTTGAAAATATTTTTGAAATTATATAATATATAGTTTTTGAAAACGTTTTAAAATATATATAAT
ATATACTTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCA
Found at i:988697 original size:38 final size:37
Alignment explanation
Indices: 988640--988829 Score: 142
Period size: 38 Copynumber: 5.1 Consensus size: 37
988630 GAAAATATAT
* *
988640 TTTTGAAAT-TATATAATATATA-GTTTTTGAAAACG
1 TTTTAAAATATATATAATATATATATTTTTGAAAACG
*
988675 TTTTAAAATATATAT-A-ATATATACTTTTGAAAACG
1 TTTTAAAATATATATAATATATATATTTTTGAAAACG
* * * *
988710 TTATGAAAACATTTATATAATATATA-ATTTTTAAAAACCA
1 TT-T-TAAA-ATATATATAATATATATATTTTTGAAAA-CG
* * *
988750 TTTTGAAAATATATATAATATATAGTTTTTTTAAAAAAACA
1 TTTT-AAAATATATATAATATATA-TATTTTT--GAAAACG
* *
988791 TTTTAAAA-ATTTAT-ATATTATATGTTTTTGAAAACG
1 TTTTAAAATATATATAATA-TATATATTTTTGAAAACG
988827 TTT
1 TTT
988830 ATATATATAT
Statistics
Matches: 126, Mismatches: 15, Indels: 27
0.75 0.09 0.16
Matches are distributed among these distances:
34 5 0.04
35 22 0.17
36 14 0.11
37 3 0.02
38 31 0.25
39 23 0.18
40 17 0.13
41 6 0.05
42 5 0.04
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTAAAATATATATAATATATATATTTTTGAAAACG
Found at i:988818 original size:40 final size:39
Alignment explanation
Indices: 988715--988819 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 39
988705 AAACGTTATG
** *
988715 AAAACATTTATATAATATAT-AATTTTTAAAAACCATTTT
1 AAAA-ATTTATATAATATATGTTTTTTTAAAAAACATTTT
* *
988754 GAAAATATATATAATATATAGTTTTTTTAAAAAAACATTTT
1 AAAAATTTATATAATATAT-GTTTTTTT-AAAAAACATTTT
*
988795 AAAAATTTATATATTATATGTTTTT
1 AAAAATTTATATAATATATGTTTTT
988820 GAAAACGTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
38 14 0.25
39 3 0.05
40 11 0.20
41 27 0.49
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (39 bp):
AAAAATTTATATAATATATGTTTTTTTAAAAAACATTTT
Found at i:988839 original size:76 final size:74
Alignment explanation
Indices: 988648--988829 Score: 208
Period size: 74 Copynumber: 2.4 Consensus size: 74
988638 ATTTTTGAAA
* *
988648 TTATATAATATATAGTTTTTGAAAACGTTTTAAAATATATATAATATATACTTTTGAAAACGTTA
1 TTATATAATATATAGTTTTTGAAAACGTTTTAAAATATATATAATATATACTTTTAAAAACATTA
988713 TGAAAACAT
66 TGAAAACAT
* * * *
988722 TTATATAATATATAATTTTTAAAAACCATTTTGAAAATATATATAATATATAGTTTTTTTAAAAA
1 TTATATAATATATAGTTTTTGAAAA-CGTTTT-AAAATATATATAATATATA---CTTTT--AAA
*
988787 AACATT-TTAAAA-AT
59 AACATTATGAAAACAT
*
988801 TTATATATTATAT-GTTTTTGAAAACGTTT
1 TTATATAATATATAGTTTTTGAAAACGTTT
988830 ATATATATAT
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
74 23 0.26
75 5 0.06
76 19 0.21
77 4 0.04
78 9 0.10
79 18 0.20
80 5 0.06
81 7 0.08
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (74 bp):
TTATATAATATATAGTTTTTGAAAACGTTTTAAAATATATATAATATATACTTTTAAAAACATTA
TGAAAACAT
Found at i:990135 original size:18 final size:19
Alignment explanation
Indices: 990097--990147 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
990087 ACTTTTAAAA
*
990097 TAATATTTTTCTTATTTATT
1 TAATATTTAT-TTATTTATT
990117 TAATATTTATTTA-TTATT
1 TAATATTTATTTATTTATT
990135 TAAT-TTTAATTTA
1 TAATATTT-ATTTA
990148 ATTTCTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 3 0.10
18 14 0.48
19 3 0.10
20 9 0.31
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TAATATTTATTTATTTATT
Found at i:990191 original size:3 final size:3
Alignment explanation
Indices: 990185--990210 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
990175 TTATTTACTT
990185 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
990211 TTGATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:991959 original size:20 final size:20
Alignment explanation
Indices: 991936--991982 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
991926 ATTTAGACAT
*
991936 TTTGCATTTTTTTTATTTTC
1 TTTGCATTTTTATTATTTTC
991956 TTTGCA-TTTTATTATTTTC
1 TTTGCATTTTTATTATTTTC
*
991975 TCTGCATT
1 TTTGCATT
991983 CACATTAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.13, C:0.13, G:0.06, T:0.68
Consensus pattern (20 bp):
TTTGCATTTTTATTATTTTC
Found at i:995224 original size:161 final size:162
Alignment explanation
Indices: 995010--995794 Score: 984
Period size: 161 Copynumber: 4.8 Consensus size: 162
995000 ACATTTTTAA
* * * * * *
995010 ACAGC-TAGCTCAAGGCCAGAAGGGCTACCTGCCA-CTAAGACCTTCGAGTTCGACTACGCTCAG
1 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAG
995073 CTCCAAGGCATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTT-AGTT
66 CTCCAAGGCATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTT
*
995137 CGATTACACTCAGCTTCAAGGGCATAACATTT
131 CGATTACACTCAGCTTCAAGGGCACAACATTT
* * * *
995169 ACAACATAACTCAAGGCTAGAAGGGTTATCTGTCGCCAAAGACCTTTGGGTTCGACTACG-TCAG
1 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAG
* *
995233 CTCCTAGGCATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTT
66 CTCCAAGGCATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTT
*
995298 CGATTACACTCAGCTTCAAGGGCATAACATTT
131 CGATTACACTCAGCTTCAAGGGCACAACATTT
*
995330 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGATCTTCGAGTTCGACTACGCTCAG
1 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAG
* **
995395 CTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCC-AAGACCC-CAAG
66 CTCCAAGG--CATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAG
* *
995458 TTCGATTACACTCAGCTTC-GGGGCACATCATTT
129 TTCGATTACACTCAGCTTCAAGGGCACAACATTT
* * * * *
995491 ---GCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCA
* * * * *
995553 GCTCCAAGGCATATCATTTGCA-ATACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACC
65 GCTCCAAGGC--ATCATTTGCAGA-ATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACC
* * * * *
995617 TTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTT
123 CTTGAGTTCGATTACACTCAGCTTCAAGGGCACAACATTT
* * *
995656 ACAGCATAACTCAAGGCTAGAAGGGTTATATGTGACCAAAAGACCTTCGAGTTCGACTCCGCTCA
1 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCA
* * *
995721 GCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTTGAGAAGGGCTATCTGCTAAAGA-CCTTCG
65 GCTCCAAGG--CATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTT-G
995785 AGTTCGATTA
127 AGTTCGATTA
995795 TATTCAACTT
Statistics
Matches: 542, Mismatches: 59, Indels: 45
0.84 0.09 0.07
Matches are distributed among these distances:
157 1 0.00
158 27 0.05
159 73 0.13
160 87 0.16
161 123 0.23
162 34 0.06
163 10 0.02
164 64 0.12
165 28 0.05
167 3 0.01
168 91 0.17
170 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (162 bp):
ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAG
CTCCAAGGCATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTT
CGATTACACTCAGCTTCAAGGGCACAACATTT
Found at i:995394 original size:84 final size:82
Alignment explanation
Indices: 995046--995791 Score: 663
Period size: 84 Copynumber: 9.2 Consensus size: 82
995036 ACCTGCCACT
* *
995046 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC--ATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
*
995109 AAGGGCTATCTG--CCA
66 AAGGGTTATCTGCACCA
* * * * * * * * *
995124 AAGACCCTT--AGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAACATAACTCAAGGCT
1 AAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAACTTAAGTCG
*
995187 AGAAGGGTTATCTGTCGCCA
64 AGAAGGGTTATCTG-CACCA
* * * * *
995207 AAGACCTTTGGGTTCGACTACG-TCAGCTCCTAGGC--ATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
*
995269 AAGGGCTATCTG--CCA
66 AAGGGTTATCTGCACCA
* * * * * * * * *
995284 AAGACCCTT-AAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCT
1 AAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAACTTAAGTCG
995348 AGAAGGGTTATCTGTCACCA
64 AGAAGGGTTATCTG-CACCA
* * * *
995368 AAGATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
*
995433 AAGGGCTATCTG--CC-
66 AAGGGTTATCTGCACCA
* * * * * ** *
995447 AAGACC-CCAAGTTCGATTACACTCAGCTTCGGGGCACATCATTT---GCATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
*
995508 AAGGGTTATCTGCCAACAA
66 AAGGGTTATCTG-C-ACCA
** * *
995527 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAATACAACTTAAGTCTAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
* *
995592 AAGGGTTGTCTGCCAACAA
66 AAGGGTTATCTG-C-ACCA
* * * * * *
995611 AAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTACAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAACTTAAGTCGA
* *
995675 GAAGGGTTATATGTGACCAA
65 GAAGGGTTATCTG-CACC-A
* * * *
995695 AAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTTGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
* *
995760 AAGGGCTATCTG--CTA
66 AAGGGTTATCTGCACCA
995775 AAGACCTTCGAGTTCGA
1 AAGACCTTCGAGTTCGA
995792 TTATATTCAA
Statistics
Matches: 535, Mismatches: 103, Indels: 58
0.77 0.15 0.08
Matches are distributed among these distances:
75 26 0.05
77 36 0.07
78 50 0.09
79 13 0.02
80 86 0.16
81 62 0.12
82 7 0.01
83 58 0.11
84 194 0.36
85 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (82 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
AAGGGTTATCTGCACCA
Found at i:995680 original size:243 final size:236
Alignment explanation
Indices: 995027--995791 Score: 697
Period size: 243 Copynumber: 3.1 Consensus size: 236
995017 GCTCAAGGCC
*
995027 AGAAGGGCTACCTGCCACTAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC--ATCATTTG
1 AGAAGGGCTATCTGCCA--AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
* * * * * *
995090 CAGAATAGCTTAAGTCGAGAAGGGCTATCTGC-CAAAGACCCTT-AGTTCGATTACACTCAGCTT
64 CA-AATAACTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTTGAGTTCGACTACGCTCAGC-T
* * * * ****
995153 CAAGGGCATAACATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCGCCAAAGACCTTTGG
127 CAA-GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATC-GTCGCCAAAGACCTCCAA
* * *
995218 GTTCGACTACGTCAGCTCCTAGGCATCATTTGCAGAATAGCTTAAGTCG
190 GTTCGACTACCTCAGCTCCGAGGCATCATTTGC--AATAACTTAAGTCG
* * * * * *
995267 AGAAGGGCTATCTGCCAAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTA
1 AGAAGGGCTATCTGCCAAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTG
* * * * *
995331 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGATCTTCGAGTTCGACTACGCTCAGC
64 CA-AATAACTTAAGTCTAGAAGGGTTATCTG-CA-CAAAGACCTTTGAGTTCGACTACGCTCAGC
* * * * * *
995396 TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATC-T-GCC-AAGACC-CCAA
126 T-CAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCGTCGCCAAAGACCTCCAA
* * *
995457 GTTCGATTACACTCAGCTTCGGGGCACATCATTTGC-ATAACTTAAGTCG
190 GTTCGACTAC-CTCAGCTCCGAGG--CATCATTTGCAATAACTTAAGTCG
*
995506 AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
* *
995571 TGCAATACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTC
62 TGCAA-ATAACTTAAGTCTAGAAGGGTTATCTG-C-AC-AAAGACCTTTGAGTTCGACTACGCTC
* *
995636 AGCTCAACGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGT-GACCAAAAGAC
123 AGCTCAA-GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTAT-CGTCG-CC-AAAGAC
* * * * * *
995700 CTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTTG
184 CTCCAAGTTCGACTAC-CTCAGCTCCGAGG--CATCATTTGCA--ATAACTTAAGTCG
*
995758 AGAAGGGCTATCTGCTAAAGACCTTCGAGTTCGA
1 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGA
995792 TTATATTCAA
Statistics
Matches: 422, Mismatches: 73, Indels: 52
0.77 0.13 0.10
Matches are distributed among these distances:
238 24 0.06
239 41 0.10
240 32 0.08
241 34 0.08
242 58 0.14
243 88 0.21
244 41 0.10
245 21 0.05
246 2 0.00
248 24 0.06
249 32 0.08
251 1 0.00
252 24 0.06
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (236 bp):
AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCA
AATAACTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAG
GCACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCGTCGCCAAAGACCTCCAAGTTCGA
CTACCTCAGCTCCGAGGCATCATTTGCAATAACTTAAGTCG
Found at i:995740 original size:327 final size:322
Alignment explanation
Indices: 995046--995794 Score: 999
Period size: 327 Copynumber: 2.3 Consensus size: 322
995036 ACCTGCCACT
995046 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG--CATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
** *
995109 AAGGGCTATCTGCCAAAGACCCTTAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAAC
66 AAGGGCTATCTGCCAAAGACCCCAAGTTCGATTACACTCAGCTTCAAGGGCACAACATTT--AAC
* * * * * * *
995174 ATAACTCAAGGCTAGAAGGGTTATCTGTCGCCAAAGACCTTTGGGTTCGACTACGTCAGCTCCTA
129 ATAACTCAAGGCGAGAAGGGTTATCTGCCACAAAAGACCTTCGAGTTCGACTACGTCAGCTCCAA
* * *
995239 GGCATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTA
194 GGCATCATTTGCAGAACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGACTA
* * *
995304 CACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCA
259 CACTCAGCTTCAACGGCACAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCACCA
* *
995368 AAGATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* * *
995433 AAGGGCTATCTGCC-AAGACCCCAAGTTCGATTACACTCAGCTTC-GGGGCACATCATTT-GCAT
66 AAGGGCTATCTGCCAAAGACCCCAAGTTCGATTACACTCAGCTTCAAGGGCACAACATTTAACAT
* *
995495 AACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
131 AACTCAAGGCGAGAAGGGTTATCTGCC-ACAAAAGACCTTCGAGTTCGACTACG-TCAGCTCCAA
* * * * *
995560 GGCATATCATTTGCA-ATACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGT
194 GGC--ATCATTTGCAGA-ACAACTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTTAAGT
* *
995624 TCGACTACGCTCAGC-TCAACGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATG
252 TCGACTACACTCAGCTTCAACGGCACAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATATG
*
995688 TGACCAA
317 TCACC-A
* * *
995695 AAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTTGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* * *
995760 AAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTA
66 AAGGGCTATCTGCCAAAGACC-CCAAGTTCGATTA
995795 TATTCAACTT
Statistics
Matches: 375, Mismatches: 38, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
319 26 0.07
320 22 0.06
321 12 0.03
322 46 0.12
323 60 0.16
324 42 0.11
326 50 0.13
327 100 0.27
328 6 0.02
329 11 0.03
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (322 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCCAAGTTCGATTACACTCAGCTTCAAGGGCACAACATTTAACAT
AACTCAAGGCGAGAAGGGTTATCTGCCACAAAAGACCTTCGAGTTCGACTACGTCAGCTCCAAGG
CATCATTTGCAGAACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGACTACA
CTCAGCTTCAACGGCACAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCACCA
Found at i:996463 original size:38 final size:36
Alignment explanation
Indices: 996382--996509 Score: 120
Period size: 38 Copynumber: 3.5 Consensus size: 36
996372 TATATACACA
* * *
996382 TATATATTATATAGTTTGCAAATTGTTTTTGAAAATACA
1 TATATAATATATAGTTT--AAATTATTTTTGAAAATA-T
*
996421 TATATAATATATAGTTTAAATTTTTTTTTGAAAATAT
1 TATATAATATATAGTTTAAA-TTATTTTTGAAAATAT
*
996458 GTATAT--TATATAGTTTTTAAAATATTTTTG-AAA-AT
1 -TATATAATATATAG--TTTAAATTATTTTTGAAAATAT
996493 TATATAATATATAGTTT
1 TATATAATATATAGTTT
996510 TTGAAAACGT
Statistics
Matches: 78, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
34 8 0.10
35 2 0.03
36 17 0.22
37 10 0.13
38 25 0.32
39 16 0.21
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (36 bp):
TATATAATATATAGTTTAAATTATTTTTGAAAATAT
Found at i:996468 original size:36 final size:35
Alignment explanation
Indices: 996381--996542 Score: 139
Period size: 37 Copynumber: 4.4 Consensus size: 35
996371 ATATATACAC
* *
996381 ATATATATTATATAGTTTGCAAATTGTTTTTGAAAAT
1 ATATATAATATATAGTTT--AAATTATTTTTGAAAAT
*
996418 ACATATATAATATATAGTTTAAATTTTTTTTTGAAAAT
1 --ATATATAATATATAGTTTAAA-TTATTTTTGAAAAT
* * *
996456 ATGTATATTATATAGTTTTTAAAATATTTTTGAAAAT
1 ATATATAATATATAG--TTTAAATTATTTTTGAAAAT
***
996493 -TATATAATATATAGTTTTTGAAAACGTTTTT-AAAAT
1 ATATATAATATATAG--TTT-AAATTATTTTTGAAAAT
996529 ATATATAATATATA
1 ATATATAATATATA
996543 CTTTTGAAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
36 35 0.32
37 37 0.34
38 19 0.18
39 17 0.16
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (35 bp):
ATATATAATATATAGTTTAAATTATTTTTGAAAAT
Found at i:996523 original size:75 final size:72
Alignment explanation
Indices: 996381--996608 Score: 185
Period size: 75 Copynumber: 3.1 Consensus size: 72
996371 ATATATACAC
* * * *
996381 ATATATATTATATAGTTTGCAAATTGTTTTTGAAAATACATATATAATATATAG--TTTAAATTT
1 ATATATATTATATAGTTTTCAAAATATTTTTGAAAAT---TATATAATATATAGTTTTTAAA--A
*
996444 TTTTTTGAAAAT
61 CTTTTTGAAAAT
* *
996456 ATGTATATTATATAGTTTTTAAAATATTTTTGAAAATTATATAATATATAGTTTTTGAAAACGTT
1 ATATATATTATATAGTTTTCAAAATATTTTTGAAAATTATATAATATATAGTTTTT-AAAAC-TT
996521 TTT-AAAAT
64 TTTGAAAAT
* * * ** * *
996529 ATATATAATATATACTTTTGAAAA-CGTTATGAAAACATTTATATAATATATAATTTTTAAAAAC
1 ATATATATTATATAGTTTTCAAAATATTTTTG-AAA-A-TTATATAATATATAGTTTTT-AAAA-
*
996593 CATTTTGAAAAT
61 CTTTTTGAAAAT
996605 ATAT
1 ATAT
996609 TTTTTGAAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 17
0.79 0.11 0.11
Matches are distributed among these distances:
72 18 0.14
73 28 0.22
74 9 0.07
75 62 0.49
76 10 0.08
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (72 bp):
ATATATATTATATAGTTTTCAAAATATTTTTGAAAATTATATAATATATAGTTTTTAAAACTTTT
TGAAAAT
Found at i:996548 original size:36 final size:36
Alignment explanation
Indices: 996445--996795 Score: 159
Period size: 36 Copynumber: 9.0 Consensus size: 36
996435 TTTAAATTTT
* * *
996445 TTTTTGAAAATATGTATATTATATAGTTTTT-AAAATA
1 TTTTT-AAAATATATATAATATATA-TTTTTGAAAACA
*
996482 TTTTTGAAAAT-TATATAATATATAGTTTTTGAAAACG
1 TTTTT-AAAATATATATAATATATA-TTTTTGAAAACA
* *
996519 TTTTTAAAATATATATAATATATACTTTTGAAAACG
1 TTTTTAAAATATATATAATATATATTTTTGAAAACA
** * *
996555 TTATGAAAACATTTATATAATATATAATTTTTAAAAACCA
1 TT-TTTAAA-ATATATATAATATAT-ATTTTTGAAAA-CA
* * **
996595 TTTTGAAAATATATTTTTTGAAAATTATATAATATATAGTTTTTGAAA-A
1 TTTTTAAAATATA-----T-ATAA-TATAT-AT-T-T--TTGA--AAACA
* * *
996644 CGTTTTAAAATATATATAATATATACTTTTGAAAACG
1 -TTTTTAAAATATATATAATATATATTTTTGAAAACA
** * *
996681 TTATGAAAACATTTATATAATATATAATTTTTAAAAACCA
1 TT-TTTAAA-ATATATATAATATAT-ATTTTTGAAAA-CA
* *
996721 TTTTGAAAATATATATAATATATAGTTTTTTTTAAAAACA
1 TTTTTAAAATATATATAATATATA----TTTTTGAAAACA
* * * *
996761 TTTTAAAAATTTATATATTATATGTTTTTGAAAAC
1 TTTTTAAAATATATATAATATATATTTTTGAAAAC
996796 GTTTATATAT
Statistics
Matches: 246, Mismatches: 39, Indels: 59
0.72 0.11 0.17
Matches are distributed among these distances:
36 49 0.20
37 42 0.17
38 48 0.20
39 26 0.11
40 29 0.12
41 11 0.04
42 1 0.00
43 6 0.02
44 6 0.02
45 9 0.04
46 1 0.00
47 1 0.00
49 3 0.01
50 11 0.04
51 3 0.01
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (36 bp):
TTTTTAAAATATATATAATATATATTTTTGAAAACA
Found at i:996590 original size:27 final size:27
Alignment explanation
Indices: 996560--996659 Score: 82
Period size: 26 Copynumber: 3.7 Consensus size: 27
996550 AAACGTTATG
996560 AAAACATTTATATAATATATAATTTTTA
1 AAAACATTT-TATAATATATAATTTTTA
*
996588 AAAACCATTTTGA-AA-ATAT-ATTTTTT
1 AAAA-CATTTT-ATAATATATAATTTTTA
* * * *
996614 GAAA-ATTATATAATATATAGTTTTTG
1 AAAACATTTTATAATATATAATTTTTA
* *
996640 AAAACGTTTTAAAATATATA
1 AAAACATTTTATAATATATA
996660 TAATATATAC
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
23 1 0.02
24 6 0.11
25 4 0.07
26 17 0.30
27 16 0.28
28 7 0.12
29 6 0.11
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (27 bp):
AAAACATTTTATAATATATAATTTTTA
Found at i:996609 original size:126 final size:125
Alignment explanation
Indices: 996479--996734 Score: 494
Period size: 126 Copynumber: 2.0 Consensus size: 125
996469 AGTTTTTAAA
996479 ATATTTTTGAAAATTATATAATATATAGTTTTTGAAAACGTTTTTAAAATATATATAATATATAC
1 ATATTTTTGAAAATTATATAATATATAGTTTTTGAAAACG-TTTTAAAATATATATAATATATAC
996544 TTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAAT
65 TTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAAT
996605 ATATTTTTTGAAAATTATATAATATATAGTTTTTGAAAACGTTTTAAAATATATATAATATATAC
1 ATA-TTTTTGAAAATTATATAATATATAGTTTTTGAAAACGTTTTAAAATATATATAATATATAC
996670 TTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAAT
65 TTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAAT
996731 ATAT
1 ATAT
996735 ATAATATATA
Statistics
Matches: 129, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
125 1 0.01
126 91 0.71
127 37 0.29
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (125 bp):
ATATTTTTGAAAATTATATAATATATAGTTTTTGAAAACGTTTTAAAATATATATAATATATACT
TTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAAT
Done.