Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 187 of 207
Found at i:56916404 original size:6 final size:6
Alignment explanation
Indices: 56916393--56916418 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
56916383 TTTTTCTTAA
56916393 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
56916419 CCCAAAATTT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:56917308 original size:66 final size:66
Alignment explanation
Indices: 56917230--56917362 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
56917220 CAAACCCCAC
*
56917230 CCCAATCAGATATATATTCAAAATTATCATGCTTACATGCTCATATACATATATCAAGTAAATAT
1 CCCAACCAGATATATATTCAAAATTATCATGCTTACATGCTCATATACATATATCAAGTAAATAT
56917295 A
66 A
* * *
56917296 CCCAACCAGATATATATTCAAAATTATCATGCTTACTTGCTCATTTACATATATCAAGTAAGTAT
1 CCCAACCAGATATATATTCAAAATTATCATGCTTACATGCTCATATACATATATCAAGTAAATAT
56917361 A
66 A
56917362 C
1 C
56917363 ACGGACATGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.34
Consensus pattern (66 bp):
CCCAACCAGATATATATTCAAAATTATCATGCTTACATGCTCATATACATATATCAAGTAAATAT
A
Found at i:56919932 original size:20 final size:19
Alignment explanation
Indices: 56919887--56919933 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
56919877 TTCATTTTTT
56919887 ATAA-TTTTTATTTTTAAA
1 ATAATTTTTTATTTTTAAA
*
56919905 ATATTTTTTTATTTTTAAA
1 ATAATTTTTTATTTTTAAA
56919924 ATGAATTTTT
1 AT-AATTTTT
56919934 GGTGTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 16 0.64
20 6 0.24
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
ATAATTTTTTATTTTTAAA
Found at i:56929179 original size:11 final size:11
Alignment explanation
Indices: 56929165--56929270 Score: 56
Period size: 11 Copynumber: 9.4 Consensus size: 11
56929155 TTTAGTTTTA
56929165 TTTTTTCTTTC
1 TTTTTTCTTTC
56929176 TTTTTT-TTATC
1 TTTTTTCTT-TC
* *
56929187 GTTTCTCTTTC
1 TTTTTTCTTTC
* **
56929198 GTTCCTCTTTC
1 TTTTTTCTTTC
* *
56929209 TTTTTATTTTTA
1 TTTTT-TCTTTC
56929221 TTTTTT-TTTC
1 TTTTTTCTTTC
*
56929231 TTTTCTTCATTTT
1 TTTT-TTC-TTTC
56929244 TTCTTTTCTTT-
1 TT-TTTTCTTTC
*
56929255 TCTTTTCTTTTC
1 TTTTTTC-TTTC
56929267 TTTT
1 TTTT
56929271 CTTCCTTGGA
Statistics
Matches: 74, Mismatches: 12, Indels: 17
0.72 0.12 0.17
Matches are distributed among these distances:
10 14 0.19
11 33 0.45
12 17 0.23
13 8 0.11
14 2 0.03
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:56929235 original size:5 final size:5
Alignment explanation
Indices: 56929167--56929273 Score: 74
Period size: 5 Copynumber: 20.4 Consensus size: 5
56929157 TAGTTTTATT
* * * * *
56929167 TTTTC -TTTC TTTTT TTTATC GTTTC TCTTTC GTTCC TCTTTC TTTTTAT
1 TTTTC TTTTC TTTTC TTT-TC TTTTC T-TTTC TTTTC T-TTTC -TTTT-C
* *
56929216 TTTTA TTTTT TTTTC TTTTC TTCATT- TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TT--TTC TTTTC TTTTC TTTTC TTTTC TTTTC
56929267 TTTTC TT
1 TTTTC TT
56929274 CCTTGGATTG
Statistics
Matches: 81, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
4 6 0.07
5 53 0.65
6 19 0.23
7 3 0.04
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:56934408 original size:238 final size:238
Alignment explanation
Indices: 56933990--56934468 Score: 931
Period size: 238 Copynumber: 2.0 Consensus size: 238
56933980 CATAACTCTG
*
56933990 ACATGTTTAAGAGACGAACCCTGCAATTTAATTAACCCAAAAAAGTAATGAAAAAAGAAAGATAA
1 ACATGTTTAAGAGACAAACCCTGCAATTTAATTAACCCAAAAAAGTAATGAAAAAAGAAAGATAA
56934055 TTTTTATATATAAGCCAAATAAAATTGGGTTTTTCTCTGTGTGCGCGTGTGTTGGATTCAATTAA
66 TTTTTATATATAAGCCAAATAAAATTGGGTTTTTCTCTGTGTGCGCGTGTGTTGGATTCAATTAA
*
56934120 ATTTTCACCTTTGATTAATTGTAATTAAGCATCAAAGCAAATGATGTTCATTTTCTTCCATGCAA
131 ATTTTCACCTTTGATTAATTGTAATTAAGCATCAAAGCAAATGATGTTCATTTTCTTCCACGCAA
56934185 ACAAGACTACACGTTTGGAGTAGTACATATGCCCAGTTGGACC
196 ACAAGACTACACGTTTGGAGTAGTACATATGCCCAGTTGGACC
*
56934228 ACATGTTTAAGAGACAAACCCTGCAATTTAATTAACCCAAAAAAGTAATGAAAAAAGGAAGATAA
1 ACATGTTTAAGAGACAAACCCTGCAATTTAATTAACCCAAAAAAGTAATGAAAAAAGAAAGATAA
56934293 TTTTTATATATAAGCCAAATAAAATTGGGTTTTTCTCTGTGTGCGCGTGTGTTGGATTCAATTAA
66 TTTTTATATATAAGCCAAATAAAATTGGGTTTTTCTCTGTGTGCGCGTGTGTTGGATTCAATTAA
56934358 ATTTTCACCTTTGATTAATTGTAATTAAGCATCAAAGCAAATGATGTTCATTTTCTTCCACGCAA
131 ATTTTCACCTTTGATTAATTGTAATTAAGCATCAAAGCAAATGATGTTCATTTTCTTCCACGCAA
56934423 ACAAGACTACACGTTTGGAGTAGTACATATGCCCAGTTGGACC
196 ACAAGACTACACGTTTGGAGTAGTACATATGCCCAGTTGGACC
56934466 ACA
1 ACA
56934469 GTAATACTGC
Statistics
Matches: 238, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
238 238 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (238 bp):
ACATGTTTAAGAGACAAACCCTGCAATTTAATTAACCCAAAAAAGTAATGAAAAAAGAAAGATAA
TTTTTATATATAAGCCAAATAAAATTGGGTTTTTCTCTGTGTGCGCGTGTGTTGGATTCAATTAA
ATTTTCACCTTTGATTAATTGTAATTAAGCATCAAAGCAAATGATGTTCATTTTCTTCCACGCAA
ACAAGACTACACGTTTGGAGTAGTACATATGCCCAGTTGGACC
Found at i:56934989 original size:20 final size:21
Alignment explanation
Indices: 56934940--56934990 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
56934930 GGGTTGTTAG
56934940 TTTTGCAATTTTCCATATTTGC
1 TTTTGC-ATTTTCCATATTTGC
*
56934962 GTTT-CATTTTCCACT-TTT-C
1 TTTTGCATTTTCCA-TATTTGC
56934981 TTTTGCATTT
1 TTTTGCATTT
56934991 ATCCCTTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 4 0.16
20 16 0.64
21 2 0.08
22 3 0.12
ACGTcount: A:0.14, C:0.20, G:0.08, T:0.59
Consensus pattern (21 bp):
TTTTGCATTTTCCATATTTGC
Found at i:56936944 original size:16 final size:16
Alignment explanation
Indices: 56936923--56936954 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56936913 TCACACATGC
56936923 CTGTGTGGCCCACACG
1 CTGTGTGGCCCACACG
*
56936939 CTGTGTGGTCCACACG
1 CTGTGTGGCCCACACG
56936955 GCCCAAATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.34, G:0.31, T:0.22
Consensus pattern (16 bp):
CTGTGTGGCCCACACG
Found at i:56938738 original size:5 final size:5
Alignment explanation
Indices: 56938728--56938775 Score: 71
Period size: 5 Copynumber: 9.4 Consensus size: 5
56938718 TTTCGTTCCT
56938728 TTTTC TTTTC TTTTC TTCATT- TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TT--TTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
56938776 CCTTGGATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
4 2 0.05
5 34 0.85
6 2 0.05
7 2 0.05
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:56947756 original size:23 final size:22
Alignment explanation
Indices: 56947727--56947770 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
56947717 AGTTTTATTT
56947727 TTCCTTTTT-TTGTTTCTCTTTCG
1 TTCCTTTTTCTT-TTTCT-TTTCG
56947750 TTCCTTTTTCTTTTTCTTTTC
1 TTCCTTTTTCTTTTTCTTTTC
56947771 TTTTCTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 14 0.70
24 2 0.10
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.73
Consensus pattern (22 bp):
TTCCTTTTTCTTTTTCTTTTCG
Found at i:56947769 original size:5 final size:5
Alignment explanation
Indices: 56947755--56947803 Score: 64
Period size: 5 Copynumber: 9.4 Consensus size: 5
56947745 TTTCGTTCCT
56947755 TTTTC TTTTTC TTTTC TTTTC TTCATT- TTTTC TTTTC TTTTC TTTTC
1 TTTTC -TTTTC TTTTC TTTTC TT--TTC TTTTC TTTTC TTTTC TTTTC
56947802 TT
1 TT
56947804 CCTTAGATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
4 2 0.05
5 29 0.73
6 7 0.17
7 2 0.05
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:56947772 original size:26 final size:25
Alignment explanation
Indices: 56947731--56947807 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 25
56947721 TTATTTTTCC
*
56947731 TTTTTTT-GTTTCTCTTTCGTTCCTTT
1 TTTTTTTCTTTTCT-TTTC-TTCCTTT
*
56947757 TTCTTTTTCTTTTCTTTTCTTCATTT
1 TT-TTTTTCTTTTCTTTTCTTCCTTT
56947783 TTTCTTTTCTTTTCTTTTCTTCCTT
1 TTT-TTTTCTTTTCTTTTCTTCCTT
56947808 AGATTGTTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.02
26 30 0.67
27 9 0.20
28 5 0.11
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.75
Consensus pattern (25 bp):
TTTTTTTCTTTTCTTTTCTTCCTTT
Found at i:56951586 original size:27 final size:27
Alignment explanation
Indices: 56951556--56951751 Score: 142
Period size: 27 Copynumber: 7.3 Consensus size: 27
56951546 GAGAGGTCAA
* *
56951556 TAAAATGACCGAATTACCCCCATAGTG
1 TAAAATGACCGAATTACCCCCACAGGG
*
56951583 TAAAATGACCGAATTACACCCACAGGG
1 TAAAATGACCGAATTACCCCCACAGGG
* ** * *
56951610 TAAAATGGCTAAATTACCCTCACAGCG
1 TAAAATGACCGAATTACCCCCACAGGG
* * * *
56951637 TAAAATGATCAAATTACTCCTACAGGG
1 TAAAATGACCGAATTACCCCCACAGGG
* * * *
56951664 TAAAATGATCGAAATACCCCTGA-AGGA
1 TAAAATGACCGAATTACCCC-CACAGGG
* * * * * *
56951691 TAAACTAACCAAAATACCCGCAAAGGG
1 TAAAATGACCGAATTACCCCCACAGGG
** * *
56951718 TAAAATGACTAAAATACCCCCATAGGG
1 TAAAATGACCGAATTACCCCCACAGGG
56951745 TAAAATG
1 TAAAATG
56951752 GCTGTTATAC
Statistics
Matches: 134, Mismatches: 33, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
26 1 0.01
27 132 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAATTACCCCCACAGGG
Found at i:56952191 original size:28 final size:28
Alignment explanation
Indices: 56952151--56952263 Score: 163
Period size: 28 Copynumber: 4.0 Consensus size: 28
56952141 ATTGCACTGT
* *
56952151 ATTGATACTGTATTGGGCTAATGCCCAC
1 ATTGTTACTGTATTGGGCTAAGGCCCAC
56952179 ATTGTTACTGTATTGGGCTAAGGCCCAC
1 ATTGTTACTGTATTGGGCTAAGGCCCAC
* *
56952207 ATTGTTACTATTTTGGGCTAAGGCCCAC
1 ATTGTTACTGTATTGGGCTAAGGCCCAC
** *
56952235 ATTGTTACTGTATTTAGCTAAAGCCCAC
1 ATTGTTACTGTATTGGGCTAAGGCCCAC
56952263 A
1 A
56952264 CTATACGGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 76 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (28 bp):
ATTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:56955188 original size:33 final size:33
Alignment explanation
Indices: 56955146--56955443 Score: 131
Period size: 33 Copynumber: 8.4 Consensus size: 33
56955136 GTGGATTCAA
*
56955146 CACTTAGCAACCACCAGTGATTCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
56955179 CACTTAGCAACCCCTTTCACATTCAATGATACGGTGGAATCAG
1 CACTTAGCAA---C---CAC---CAATGATTCGG-GGAATCAG
* *
56955222 CACTTAGCAACCACCAATGAATCGGGGAATTAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * * * *
56955255 CACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATTAA
1 CACTTAGCAACCAC---CA-A--T--GATTCGG-GGAATCAG
* *
56955297 CACTTAGCAACCACCAATGAATCAGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
56955330 CACTTAGCAACC-CC-----TTGGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * * * *
56955357 CACTTAACAACCCCCTTCACATTTAAAATACGGTGGAATCAA
1 CACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAATCAG
* *
56955399 CACTTAACAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
56955432 CACTTAGCAACC
1 CACTTAGCAACC
56955444 CCTTGGCGGA
Statistics
Matches: 201, Mismatches: 30, Indels: 68
0.67 0.10 0.23
Matches are distributed among these distances:
27 19 0.09
28 2 0.01
29 1 0.00
31 1 0.00
32 2 0.01
33 65 0.32
34 17 0.08
36 5 0.02
37 4 0.02
38 2 0.01
39 8 0.04
40 1 0.00
41 11 0.05
42 45 0.22
43 18 0.09
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.21
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAG
Found at i:56955232 original size:43 final size:42
Alignment explanation
Indices: 56955163--56955308 Score: 134
Period size: 42 Copynumber: 3.7 Consensus size: 42
56955153 CAACCACCAG
*
56955163 TGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
1 TGATACGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
56955205 TGATACGGTGGAATCAGCACTTAGCAA---C---CAC---CAA
1 TGATACGG-GGAATCAGCACTTAGCAACCCCTTTCACATTCAA
* *
56955239 TGA-ATCGGGGAATTAGCACTTAGCAACCCCTTTCACATTTAA
1 TGATA-CGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
* * *
56955281 -GATACGGTGGGATTAACACTTAGCAACC
1 TGATACGG-GGAATCAGCACTTAGCAACC
56955309 ACCAATGAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 26
0.74 0.04 0.22
Matches are distributed among these distances:
33 18 0.21
34 9 0.10
36 1 0.01
37 3 0.03
39 3 0.03
40 1 0.01
41 5 0.06
42 28 0.33
43 18 0.21
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
TGATACGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
Found at i:56955260 original size:76 final size:75
Alignment explanation
Indices: 56955134--56955345 Score: 334
Period size: 76 Copynumber: 2.8 Consensus size: 75
56955124 TATCCGTTAT
* * *
56955134 CGGTGGATTCAACACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
56955199 ATTCAATGATA
66 ATTCAA-GATA
* *
56955210 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATTAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
56955275 ATTTAAGATA
66 ATTCAAGATA
* * *
56955285 CGGTGGGATTAACACTTAGCAACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
56955346 GGGGGAATCA
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 60 0.48
76 65 0.52
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (75 bp):
CGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAGATA
Found at i:56955325 original size:75 final size:76
Alignment explanation
Indices: 56955134--56955345 Score: 329
Period size: 75 Copynumber: 2.8 Consensus size: 76
56955124 TATCCGTTAT
* *
56955134 CGGT-GGATTCAACACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCA
1 CGGTGGGATT-AACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCA
56955198 CATTCAATGATA
65 CATTCAATGATA
* * * *
56955210 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATTAGCACTTAGCAACCCCTTTCAC
1 CGGTGGGATTAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
56955275 ATTTAA-GATA
66 ATTCAATGATA
*
56955285 CGGTGGGATTAACACTTAGCAACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGGATTAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
56955346 GGGGGAATCA
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
75 60 0.49
76 60 0.49
77 3 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (76 bp):
CGGTGGGATTAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAATGATA
Found at i:56955368 original size:102 final size:102
Alignment explanation
Indices: 56955245--56955489 Score: 409
Period size: 102 Copynumber: 2.4 Consensus size: 102
56955235 CCAATGAATC
* * * * * *
56955245 GGGGAATTAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATTAACACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAACAACCA
56955310 CCAATGAATCAGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATCAGGGAATCAGCACTTAGCAACCCCTTG
*
56955347 GGGGAATCAGCACTTAACAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAACAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAACAACCA
*
56955412 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATCAGGGAATCAGCACTTAGCAACCCCTTG
*
56955449 GCGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAC
56955490 TCCGGCCTAT
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 133 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAACAACCA
CCAATGAATCAGGGAATCAGCACTTAGCAACCCCTTG
Found at i:56955836 original size:30 final size:30
Alignment explanation
Indices: 56955802--56955859 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56955792 TAGTACTCCA
*
56955802 CCCAACCTTTTGAAAAATTACAATTTTGCC
1 CCCAAACTTTTGAAAAATTACAATTTTGCC
* * *
56955832 CCCAAACTTTTGCATATTTACAATTTTG
1 CCCAAACTTTTGAAAAATTACAATTTTG
56955860 TTCCTAAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
CCCAAACTTTTGAAAAATTACAATTTTGCC
Found at i:56957195 original size:15 final size:15
Alignment explanation
Indices: 56957175--56957205 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
56957165 GTAAAGTGAT
56957175 AGCTTACATGTCGTG
1 AGCTTACATGTCGTG
56957190 AGCTTACATGTCGTG
1 AGCTTACATGTCGTG
56957205 A
1 A
56957206 CAAATTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (15 bp):
AGCTTACATGTCGTG
Found at i:56959423 original size:8 final size:8
Alignment explanation
Indices: 56959406--56959457 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
56959396 CTTTCGTTCC
56959406 TTTTTC-T
1 TTTTTCTT
56959413 TTTTTCTT
1 TTTTTCTT
56959421 TTTTTCTT
1 TTTTTCTT
56959429 CATTTTT-TT
1 --TTTTTCTT
*
56959438 CTTTTCTT
1 TTTTTCTT
*
56959446 TTCTTCTT
1 TTTTTCTT
56959454 TTTT
1 TTTT
56959458 CTTCCTTGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
7 10 0.27
8 20 0.54
9 2 0.05
10 5 0.14
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:56959434 original size:25 final size:25
Alignment explanation
Indices: 56959397--56959453 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
56959387 ATCGTTTCTC
*
56959397 TTTCGTTCCTTTTTCTT-TTTTCTTTT
1 TTTC-TTCATTTTT-TTCTTTTCTTTT
56959423 TTTCTTCATTTTTTTCTTTTCTTTT
1 TTTCTTCATTTTTTTCTTTTCTTTT
*
56959448 CTTCTT
1 TTTCTT
56959454 TTTTCTTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 22 0.79
26 4 0.14
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTCTTCATTTTTTTCTTTTCTTTT
Found at i:56959437 original size:22 final size:21
Alignment explanation
Indices: 56959412--56959457 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
56959402 TTCCTTTTTC
56959412 TTTTTTC-TTT-TTTTCTTCAT
1 TTTTTTCTTTTCTTTTCTTC-T
56959432 TTTTTTCTTTTCTTTTCTTCT
1 TTTTTTCTTTTCTTTTCTTCT
56959453 TTTTT
1 TTTTT
56959458 CTTCCTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 9 0.38
22 8 0.33
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTCTTTTCTTTTCTTCT
Found at i:56959458 original size:20 final size:19
Alignment explanation
Indices: 56959409--56959460 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 19
56959399 TCGTTCCTTT
56959409 TTCTTTTTTC-TTTTTTTC
1 TTCTTTTTTCTTTTTTTTC
56959427 TTCATTTTTTTCTTTTCTTTTC
1 TTC--TTTTTTCTTTT-TTTTC
56959449 TTCTTTTTTCTT
1 TTCTTTTTTCTT
56959461 CCTTGGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.10
20 16 0.53
21 3 0.10
22 8 0.27
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (19 bp):
TTCTTTTTTCTTTTTTTTC
Found at i:56967503 original size:5 final size:5
Alignment explanation
Indices: 56967493--56967537 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
56967483 TAAACTTAAA
56967493 TAATT TAATT TAATT TAATT TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT TAATT TAATT TAATT TAATT
56967538 CCTTTAATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:56971622 original size:10 final size:10
Alignment explanation
Indices: 56971607--56971632 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
56971597 GTCTCAAATT
56971607 TATGAAAAGA
1 TATGAAAAGA
56971617 TATGAAAAGA
1 TATGAAAAGA
56971627 TATGAA
1 TATGAA
56971633 GGACAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (10 bp):
TATGAAAAGA
Found at i:56973039 original size:16 final size:19
Alignment explanation
Indices: 56973010--56973069 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
56973000 AAAATAAAAT
56973010 TTAA-ATATTAAATAATTTA
1 TTAATATATT-AATAATTTA
56973029 TTAA-A-A-TAATAAATTATA
1 TTAATATATTAAT-AATT-TA
56973047 TTAATTATATTAATAATTTA
1 TTAA-TATATTAATAATTTA
56973067 TTA
1 TTA
56973070 TATGACTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.09
17 5 0.14
18 7 0.20
19 5 0.14
20 6 0.17
21 5 0.14
22 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAATATATTAATAATTTA
Found at i:56973186 original size:24 final size:23
Alignment explanation
Indices: 56973143--56973191 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
56973133 AGTAATATTT
56973143 TAAATATTTTTAAAAAATAAAAA
1 TAAATATTTTTAAAAAATAAAAA
* *
56973166 TAAA-ATTTATTATAAATATAATAA
1 TAAATATTT-TTA-AAAAATAAAAA
56973190 TA
1 TA
56973192 TTAAAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 7 0.32
24 11 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAATATTTTTAAAAAATAAAAA
Found at i:56976381 original size:31 final size:31
Alignment explanation
Indices: 56976311--56976383 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
56976301 GAATCAAAAT
56976311 TTCATGTATAAAATTACAAAAAGAAAACAAAG
1 TTCATGTATAAAATTACAAAAAG-AAACAAAG
* ** *
56976343 TTTATGTATAAAATTACATATTAG-ATCAAAG
1 TTCATGTATAAAATTACA-AAAAGAAACAAAG
56976374 TTCATGTATA
1 TTCATGTATA
56976384 TTTTTTTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 15 0.43
32 17 0.49
33 3 0.09
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (31 bp):
TTCATGTATAAAATTACAAAAAGAAACAAAG
Found at i:56979781 original size:36 final size:37
Alignment explanation
Indices: 56979701--56979790 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 37
56979691 CCAGAATGGC
* *
56979701 ACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTG
1 ACCCAGTGCCTCATCGGAAAGTCCGAAGCAATAGTTG
*
56979738 ACACCAGTGTCTCATCGGCAAAG-CCGAAG-AA-AGTTG
1 AC-CCAGTGCCTCATCGG-AAAGTCCGAAGCAATAGTTG
*
56979774 TACCCAGTACCTCATCG
1 -ACCCAGTGCCTCATCG
56979791 AATCTATCCG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
36 17 0.38
37 6 0.13
38 19 0.42
39 3 0.07
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (37 bp):
ACCCAGTGCCTCATCGGAAAGTCCGAAGCAATAGTTG
Found at i:56980151 original size:3 final size:3
Alignment explanation
Indices: 56980143--56980185 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
56980133 ATTCCCACTC
* *
56980143 ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA TTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
56980186 CTTACCTCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:56980903 original size:14 final size:14
Alignment explanation
Indices: 56980859--56980903 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
56980849 TCTCTGTTCC
56980859 TTTG-TTCTTTCTAT
1 TTTGTTTCTTTCT-T
* *
56980873 TCTGTTTCTTTCGT
1 TTTGTTTCTTTCTT
56980887 TTTGTTTCTTTCTT
1 TTTGTTTCTTTCTT
56980901 TTT
1 TTT
56980904 CTTTTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 19 0.73
15 7 0.27
ACGTcount: A:0.02, C:0.16, G:0.09, T:0.73
Consensus pattern (14 bp):
TTTGTTTCTTTCTT
Found at i:56980918 original size:29 final size:28
Alignment explanation
Indices: 56980859--56980918 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 28
56980849 TCTCTGTTCC
*
56980859 TTTGTTCTTTCTATTCTGTTTCTTTCGT
1 TTTGTTCTTTCTATTCTGTTTATTTCGT
* *
56980887 TTTGTTTCTTTCTTTTTCTTTTTATTTC-T
1 TTTG-TTCTTTC-TATTCTGTTTATTTCGT
56980916 TTT
1 TTT
56980919 ATTTAATTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.15
29 11 0.41
30 12 0.44
ACGTcount: A:0.03, C:0.15, G:0.07, T:0.75
Consensus pattern (28 bp):
TTTGTTCTTTCTATTCTGTTTATTTCGT
Found at i:56981118 original size:17 final size:19
Alignment explanation
Indices: 56981083--56981130 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
56981073 GTAATTAATT
56981083 TAATAATATACTTTATATA
1 TAATAATATACTTTATATA
* * *
56981102 TAATTATATATTTTATAAA
1 TAATAATATACTTTATATA
56981121 TAATAATATA
1 TAATAATATA
56981131 AAAATCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATAATATACTTTATATA
Found at i:56986005 original size:21 final size:21
Alignment explanation
Indices: 56985963--56986005 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
56985953 TTCACTATAC
*
56985963 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
56985984 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
56986005 A
1 A
56986006 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:56987116 original size:39 final size:37
Alignment explanation
Indices: 56987049--56987141 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
56987039 ACCAGAATGG
* *
56987049 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
56987088 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
56987125 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
56987142 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:56987504 original size:3 final size:3
Alignment explanation
Indices: 56987496--56987531 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
56987486 ATTCCCACTC
* *
56987496 ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56987532 CTTACCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:56988272 original size:20 final size:20
Alignment explanation
Indices: 56988238--56988277 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
56988228 TTCTATTCTG
*
56988238 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
56988258 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
56988278 CTTTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:56988443 original size:31 final size:28
Alignment explanation
Indices: 56988407--56988474 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
56988397 TTGTCTTTAT
**
56988407 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
56988437 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
56988466 TTAATTTAT
1 TTAATTTAT
56988475 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:56988491 original size:21 final size:20
Alignment explanation
Indices: 56988453--56988491 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
56988443 TAATTTAATA
*
56988453 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
56988473 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
56988492 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:56996889 original size:17 final size:17
Alignment explanation
Indices: 56996867--56996901 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
56996857 TCTTACATAA
56996867 TATTTTTT-TATGAAAAT
1 TATTTTTTATAT-AAAAT
56996884 TATTTTTTATATAAAAT
1 TATTTTTTATATAAAAT
56996901 T
1 T
56996902 TTTAAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TATTTTTTATATAAAAT
Found at i:56997243 original size:18 final size:17
Alignment explanation
Indices: 56997214--56997247 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
56997204 AAAAATTATA
56997214 TTAAATTATAATTATTT
1 TTAAATTATAATTATTT
56997231 TTAAATGTATAATTATT
1 TTAAAT-TATAATTATT
56997248 AAAACTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTAAATTATAATTATTT
Found at i:56997827 original size:37 final size:37
Alignment explanation
Indices: 56997774--56997901 Score: 93
Period size: 37 Copynumber: 3.5 Consensus size: 37
56997764 TTTAGAGTTC
*
56997774 TAATAATTCTATTTTAAAAATTAGCATAATTTTTAAT
1 TAATAATTCTAATTTAAAAATTAGCATAATTTTTAAT
* * * * *
56997811 TAATAATTGTAATTT-AAATTCTA--ATTATTTTGAGTT
1 TAATAATTCTAATTTAAAAAT-TAGCATAATTTTTA-AT
* * **
56997847 CTAAAAATTCT-ATTTTAAAATTAGCATAACATTTAAT
1 -TAATAATTCTAATTTAAAAATTAGCATAATTTTTAAT
* *
56997884 TAACAATTGTAATTTAAA
1 TAATAATTCTAATTTAAA
56997902 TTCTTATATT
Statistics
Matches: 67, Mismatches: 17, Indels: 14
0.68 0.17 0.14
Matches are distributed among these distances:
35 8 0.12
36 19 0.28
37 34 0.51
38 6 0.09
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (37 bp):
TAATAATTCTAATTTAAAAATTAGCATAATTTTTAAT
Found at i:56997892 original size:73 final size:76
Alignment explanation
Indices: 56997759--56997905 Score: 237
Period size: 73 Copynumber: 2.0 Consensus size: 76
56997749 TCTCTATATT
* ** *
56997759 TTATGTTTAGAGTTCTAATAATTCTATTTTAAAAATTAGCATAATTTTTAATTAATAATTGTAAT
1 TTATGTTTAGAGTTCTAAAAATTCTATTTTAAAAATTAGCATAACATTTAATTAACAATTGTAAT
56997824 TTAAATTCTAA
66 TTAAATTCTAA
56997835 TTAT-TTT-GAGTTCTAAAAATTCTATTTT-AAAATTAGCATAACATTTAATTAACAATTGTAAT
1 TTATGTTTAGAGTTCTAAAAATTCTATTTTAAAAATTAGCATAACATTTAATTAACAATTGTAAT
56997897 TTAAATTCT
66 TTAAATTCT
56997906 TATATTGGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
73 40 0.60
74 20 0.30
75 3 0.04
76 4 0.06
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (76 bp):
TTATGTTTAGAGTTCTAAAAATTCTATTTTAAAAATTAGCATAACATTTAATTAACAATTGTAAT
TTAAATTCTAA
Found at i:56998809 original size:21 final size:21
Alignment explanation
Indices: 56998776--56998815 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56998766 TGTCTCTTTA
*
56998776 TTTAAATTTATTAAAATATGT
1 TTTAAATTAATTAAAATATGT
* *
56998797 TTTAAGTTAATTAATATAT
1 TTTAAATTAATTAAAATAT
56998816 TACTTATGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTAAATTAATTAAAATATGT
Found at i:57008893 original size:28 final size:31
Alignment explanation
Indices: 57008835--57008893 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
57008825 ATATATAGTT
57008835 TTTATATTATTTATAAAGGTTATAATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
* *
57008866 TTTATA-TA-TTAT-AATGTTATTATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
57008894 AAACAAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 14 0.54
29 4 0.15
30 2 0.08
31 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTATATTATTTATAAAGGTTATAATAATAA
Found at i:57009903 original size:41 final size:44
Alignment explanation
Indices: 57009776--57009908 Score: 134
Period size: 45 Copynumber: 3.0 Consensus size: 44
57009766 AGGATTTTCG
* *
57009776 ATATGTGTTCTCGTGTAAGACCAC-GTCTGGGAC-GATGGCATCGAT
1 ATATGTGAT-TCGTGTAAGACC-CTGTCTGAGACAG-TGGCATCGAT
* *
57009821 ATATGTGATTACGTGTAAGACCATGTCT-AGGACATTGGCATCG-T
1 ATATGTGATT-CGTGTAAGACCCTGTCTGA-GACAGTGGCATCGAT
*
57009865 AT-T-TGATTCGTGTAAGACCCTGTCTGAGACAGTAGCATCGAT
1 ATATGTGATTCGTGTAAGACCCTGTCTGAGACAGTGGCATCGAT
57009907 AT
1 AT
57009909 GAGATAGCAT
Statistics
Matches: 75, Mismatches: 7, Indels: 15
0.77 0.07 0.15
Matches are distributed among these distances:
41 27 0.36
42 9 0.12
43 1 0.01
44 4 0.05
45 34 0.45
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (44 bp):
ATATGTGATTCGTGTAAGACCCTGTCTGAGACAGTGGCATCGAT
Found at i:57013577 original size:46 final size:46
Alignment explanation
Indices: 57013525--57013775 Score: 204
Period size: 36 Copynumber: 6.1 Consensus size: 46
57013515 TTTGAGTACT
*
57013525 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
57013571 TCTGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
57013607 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
57013653 TCTGATCAAGTGAAAAAGTGATAA---GT-GC--TA--T--ACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
57013689 TCTGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
57013725 TCTGATCAAGTGACAAAGTAATAAGTGGTAGC-TTAGCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
57013770 TTTGAT
1 TCTGAT
57013776 TAGGGACGTA
Statistics
Matches: 172, Mismatches: 9, Indels: 49
0.75 0.04 0.21
Matches are distributed among these distances:
33 1 0.01
34 2 0.01
35 1 0.01
36 82 0.48
37 3 0.02
38 1 0.01
40 4 0.02
42 6 0.03
43 2 0.01
44 1 0.01
45 17 0.10
46 52 0.30
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:57013602 original size:36 final size:36
Alignment explanation
Indices: 57013561--57013751 Score: 247
Period size: 36 Copynumber: 5.0 Consensus size: 36
57013551 GGTAGCTTTA
57013561 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
57013597 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
57013642 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
57013679 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
57013715 GCTACACTTATCTGATCAAGTGACAAAGTAATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
57013751 G
1 G
57013752 GTAGCTTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
36 99 0.72
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.22
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:57013618 original size:82 final size:82
Alignment explanation
Indices: 57013525--57013715 Score: 346
Period size: 82 Copynumber: 2.3 Consensus size: 82
57013515 TTTGAGTACT
*
57013525 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
57013590 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
57013607 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
57013672 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
*
57013689 TCTGATCAAGTGAAAAAGTGATAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTG
57013716 CTACACTTAT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 105 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:57013702 original size:118 final size:117
Alignment explanation
Indices: 57013561--57013775 Score: 385
Period size: 118 Copynumber: 1.8 Consensus size: 117
57013551 GGTAGCTTTA
57013561 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
*
57013626 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 AATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
57013679 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGTGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
*
57013744 AATAAGTGGTAGCTTAGCTACACTTATTTGAT
66 AATAAGTGGTAGCTTAGCTACACTTATCTGAT
57013776 TAGGGACGTA
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
117 18 0.19
118 75 0.81
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (117 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
AATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:57015944 original size:142 final size:142
Alignment explanation
Indices: 57015683--57015968 Score: 464
Period size: 142 Copynumber: 2.0 Consensus size: 142
57015673 CCGTCCTGCC
* *
57015683 TGACCTGTCTACGTGAGAGGTGCCTCCGACAACTTTTGAGCTTGTCCCAAACAAAGGGTTGCGTA
1 TGACCTGTCTACGTGAGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAAACAAAGGGTTGCATA
* * * *
57015748 GGAATCTGAAAGGTCATCCGAAATCATCCATAATTCGTAATGAAATGGATATTAGGGAGAAATCT
66 GGAATCCGAAAGGTCATCCGAAATAATCCAAAATTCGTAATGAAATGGACATTAGGGAGAAATCT
57015813 GACAGTAAGCGT
131 GACAGTAAGCGT
* * *
57015825 TGACCTGTCTACGTGGGAGGTGCCTCCGACAACTTTCGAGCTTGTTCCAGACAAAGGGTTGCATA
1 TGACCTGTCTACGTGAGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAAACAAAGGGTTGCATA
* *
57015890 GGAATCCGAAAGGTCATCCGCAATAATCCAAAATTCGTAATGAAATGGACATTAGGGAGAAATTT
66 GGAATCCGAAAGGTCATCCGAAATAATCCAAAATTCGTAATGAAATGGACATTAGGGAGAAATCT
*
57015955 GACGGTAAGCGT
131 GACAGTAAGCGT
57015967 TG
1 TG
57015969 TGGATTATAC
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
142 132 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (142 bp):
TGACCTGTCTACGTGAGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAAACAAAGGGTTGCATA
GGAATCCGAAAGGTCATCCGAAATAATCCAAAATTCGTAATGAAATGGACATTAGGGAGAAATCT
GACAGTAAGCGT
Found at i:57016149 original size:14 final size:14
Alignment explanation
Indices: 57016130--57016158 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
57016120 TAATGTATTT
57016130 AATTTATATTACAA
1 AATTTATATTACAA
57016144 AATTTATATTACAA
1 AATTTATATTACAA
57016158 A
1 A
57016159 GTTTGTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:57016179 original size:62 final size:62
Alignment explanation
Indices: 57016082--57016248 Score: 266
Period size: 62 Copynumber: 2.7 Consensus size: 62
57016072 CAAAGTACCT
57016082 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
*
57016144 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTGTATTACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
* * * *
57016206 AATTTATAGTACAAAGCTTT-TTCTAA-TTTTAGTGTTTTAATGT
1 AATTTATATTACAAAG-TTTGTTCCAATTTTTAATGTTGTAATGT
57016249 TGTAATGCTG
Statistics
Matches: 99, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
61 15 0.15
62 81 0.82
63 3 0.03
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.50
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
Found at i:57017459 original size:14 final size:14
Alignment explanation
Indices: 57017440--57017470 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57017430 TTACATGTTT
*
57017440 GAATAGTATCGTTA
1 GAATAGTATCATTA
57017454 GAATAGTATCATTA
1 GAATAGTATCATTA
57017468 GAA
1 GAA
57017471 AAAAATGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (14 bp):
GAATAGTATCATTA
Found at i:57019141 original size:17 final size:16
Alignment explanation
Indices: 57019112--57019159 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
57019102 CCTAAAACAC
*
57019112 ACATAACAAATAAATT
1 ACATAAAAAATAAATT
57019128 ACATAAAAAAATAAA--
1 ACAT-AAAAAATAAATT
*
57019143 ACATTAAAAATAAATT
1 ACATAAAAAATAAATT
57019159 A
1 A
57019160 TGAATGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 9 0.33
15 4 0.15
16 5 0.19
17 9 0.33
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (16 bp):
ACATAAAAAATAAATT
Found at i:57019416 original size:6 final size:6
Alignment explanation
Indices: 57019398--57019528 Score: 52
Period size: 6 Copynumber: 23.0 Consensus size: 6
57019388 TTATTTTTTT
* * * * *
57019398 TCCTTC TCTTTC TCCTTC T-C-TC TCTGTTC TCCTTC TCTTTTT TTCTT-
1 TCCTTC TCCTTC TCCTTC TCCTTC TC-CTTC TCCTTC TC-CTTC TCCTTC
* * * *
57019445 TCCTTT TCCCTTC -CCTTC -CCTTCC TGCCCTC TCCTTC TTCTT- TTCTTC
1 TCCTTC T-CCTTC TCCTTC TCCTT-C T-CCTTC TCCTTC TCCTTC TCCTTC
57019493 TCCTTC T-CTT- T-CTTC TCCTTC T-CTT- T-CTTC TCCTTC
1 TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC
57019529 ACTCATCGGC
Statistics
Matches: 97, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
4 11 0.11
5 27 0.28
6 43 0.44
7 13 0.13
8 3 0.03
ACGTcount: A:0.00, C:0.42, G:0.02, T:0.56
Consensus pattern (6 bp):
TCCTTC
Found at i:57019429 original size:17 final size:16
Alignment explanation
Indices: 57019402--57019435 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
57019392 TTTTTTTCCT
57019402 TCTCTTTCTCCTTCTC
1 TCTCTTTCTCCTTCTC
57019418 TCTCTGTTCTCCTTCTC
1 TCTCT-TTCTCCTTCTC
57019435 T
1 T
57019436 TTTTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.00, C:0.41, G:0.03, T:0.56
Consensus pattern (16 bp):
TCTCTTTCTCCTTCTC
Found at i:57019506 original size:15 final size:15
Alignment explanation
Indices: 57019474--57019528 Score: 92
Period size: 15 Copynumber: 3.5 Consensus size: 15
57019464 CTTCCTGCCC
57019474 TCTCCTTCTTCTTTTCT
1 TCTCCTTC-TC-TTTCT
57019491 TCTCCTTCTCTTTCT
1 TCTCCTTCTCTTTCT
57019506 TCTCCTTCTCTTTCT
1 TCTCCTTCTCTTTCT
57019521 TCTCCTTC
1 TCTCCTTC
57019529 ACTCATCGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
15 28 0.74
16 2 0.05
17 8 0.21
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (15 bp):
TCTCCTTCTCTTTCT
Found at i:57020097 original size:31 final size:31
Alignment explanation
Indices: 57020062--57020143 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
57020052 AAATATGGGT
* **
57020062 AAGTTTTCGTTTTGGTCACTGAACTATTCAA
1 AAGTTTTCATTTAAGTCACTGAACTATTCAA
57020093 AAGTTTTCATTTAAGTCACTGAACTATTCAA
1 AAGTTTTCATTTAAGTCACTGAACTATTCAA
** *
57020124 ATTTTTTTATTTAAGTCACT
1 AAGTTTTCATTTAAGTCACT
57020144 ATTCAAAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (31 bp):
AAGTTTTCATTTAAGTCACTGAACTATTCAA
Found at i:57025407 original size:53 final size:53
Alignment explanation
Indices: 57025300--57025444 Score: 146
Period size: 53 Copynumber: 2.7 Consensus size: 53
57025290 GTAAAACAAG
* *
57025300 AAGATGATTTATCTTACGTCACCTCTAATCAACTTCTAACTACCGACAATGAT
1 AAGATGATTTATCTTACGCCACCTCTAATCAACTTCTAACTACCGACAACGAT
** * ***
57025353 AAGATGATTTATCTTACGCCGTCTCTAATCAACTTCTGACTAGTTACAACGAT
1 AAGATGATTTATCTTACGCCACCTCTAATCAACTTCTAACTACCGACAACGAT
** * *
57025406 AATTTGACAATTTTGTCTTACGTCACCTCTAATCAACTT
1 AA---GATGA-TTTATCTTACGCCACCTCTAATCAACTT
57025445 TTGTCCTTAG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
53 47 0.64
56 3 0.04
57 24 0.32
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.35
Consensus pattern (53 bp):
AAGATGATTTATCTTACGCCACCTCTAATCAACTTCTAACTACCGACAACGAT
Found at i:57032922 original size:27 final size:26
Alignment explanation
Indices: 57032877--57032946 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
57032867 TAATAAACAC
*
57032877 TAAAAAATTATTTTAAAAATAAAAAAA
1 TAAAAAAATATTTT-AAAATAAAAAAA
*
57032904 TAAAAAAAGTATTTTAAAATTAAAAAA
1 TAAAAAAA-TATTTTAAAATAAAAAAA
*
57032931 TTAAAAAATATATTTA
1 TAAAAAAATAT-TTTA
57032947 TTATGGCCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 3 0.08
27 29 0.76
28 6 0.16
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (26 bp):
TAAAAAAATATTTTAAAATAAAAAAA
Found at i:57032944 original size:28 final size:28
Alignment explanation
Indices: 57032877--57032945 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
57032867 TAATAAACAC
57032877 TAAAAAAT-TATTTTAAAAATAAAAAAA
1 TAAAAAATATATTTTAAAAATAAAAAAA
* *
57032904 TAAAAAA-AGTATTTTAAAATTAAAAAAT
1 TAAAAAATA-TATTTTAAAAATAAAAAAA
57032932 TAAAAAATATATTT
1 TAAAAAATATATTT
57032946 ATTATGGCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.19
28 29 0.78
29 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (28 bp):
TAAAAAATATATTTTAAAAATAAAAAAA
Found at i:57035973 original size:4 final size:4
Alignment explanation
Indices: 57035964--57036138 Score: 336
Period size: 4 Copynumber: 44.2 Consensus size: 4
57035954 TAATATTTAT
57035964 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-AC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
57036010 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
57036058 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
57036106 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
57036139 CATACGTATA
Statistics
Matches: 169, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
3 4 0.02
4 165 0.98
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:57036636 original size:108 final size:108
Alignment explanation
Indices: 57036398--57036700 Score: 414
Period size: 110 Copynumber: 2.8 Consensus size: 108
57036388 CTAAATAAAT
* * *
57036398 GCAATGTTTTACGTTTGGAGATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
1 GCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGA-TTTTCTCG
* * **
57036463 TTCAACCAAATGACTTAATATCCCTTTTAAAAATTTTAAAATAAG
65 TTCAACCAAATG-CTAAATATCCCTTTCAAAAATTACAAAATAAG
* *
57036508 GCAATGTTTTGCATTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTCTCGT
1 GCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTCTCGT
57036573 TCAACCAAATAGCTAAATATCCC-TTCAAAAATTACAAAATAAG
66 TCAACCAAAT-GCTAAATATCCCTTTCAAAAATTACAAAATAAG
* * * *
57036616 GCAATGTTTTGCATCTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTC-AATTTCTCGT
1 GCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTCTCGT
* *
57036679 TTAACCAAATGGCCAAATATCC
66 TCAACCAAAT-GCTAAATATCC
57036701 TCTCGAATTT
Statistics
Matches: 174, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
106 28 0.16
107 23 0.13
108 42 0.24
109 29 0.17
110 52 0.30
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (108 bp):
GCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTCTCGT
TCAACCAAATGCTAAATATCCCTTTCAAAAATTACAAAATAAG
Found at i:57048549 original size:50 final size:49
Alignment explanation
Indices: 57048495--57048650 Score: 122
Period size: 50 Copynumber: 3.1 Consensus size: 49
57048485 TACATCAGCA
57048495 AATCTTACCTCTCAGGCGGTGCAGTGGAATAAATTAAAGCCACAACGGTG
1 AATCTTACCTCTCAGGCGGTGCAGTGGAATAAATTAAAGCCACAAC-GTG
* * * ** * *
57048545 AATCTTGCCTCTCTGACATTGC-GAT-TAAAAAGATTAAAGCTGCAGCAAC--G
1 AATCTTACCTCTCAGGCGGTGCAG-TGGAATAA-ATTAAAGC--CA-CAACGTG
* * * *
57048595 AATCTTACCTCCCAGGCGGTGCAGTGGAATAGATTAAAACCACATCAGTG
1 AATCTTACCTCTCAGGCGGTGCAGTGGAATAAATTAAAGCCACAAC-GTG
57048645 AATCTT
1 AATCTT
57048651 GTTTCTCCGA
Statistics
Matches: 78, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
47 3 0.04
48 2 0.03
49 5 0.06
50 58 0.74
51 4 0.05
52 2 0.03
53 4 0.05
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (49 bp):
AATCTTACCTCTCAGGCGGTGCAGTGGAATAAATTAAAGCCACAACGTG
Found at i:57048600 original size:100 final size:100
Alignment explanation
Indices: 57048426--57048703 Score: 340
Period size: 100 Copynumber: 2.8 Consensus size: 100
57048416 AAGGGAGCAG
* * ** *
57048426 ATTAAAGCCACAACGGTGAATCTTGCTTTCCCTGACATTGCGGTTAAACGGATTAAAGCTACATC
1 ATTAAAGCCACAACGGTGAATCTTGC-TTCTCTGACATTGCGATTAAAAAGATTAAAGCTACAGC
* *
57048491 AGCAAATCTTACCTCTCAGGCGGTGCAGTGGAATAA
65 AACAAATCTTACCTCCCAGGCGGTGCAGTGGAATAA
* *
57048527 ATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGCGATTAAAAAGATTAAAGCTGCAGCA
1 ATTAAAGCCACAACGGTGAATCTTGCTTCTCTGACATTGCGATTAAAAAGATTAAAGCTACAGCA
* *
57048592 ACGAATCTTACCTCCCAGGCGGTGCAGTGGAATAG
66 ACAAATCTTACCTCCCAGGCGGTGCAGTGGAATAA
* * * * * * * * **
57048627 ATTAAAACCACATCAGTGAATCTTGTTTCTCCGACATTGCAGCTAAAAAAGATTAAAGCCACAAT
1 ATTAAAGCCACAACGGTGAATCTTGCTTCTCTGACATTGC-GATTAAAAAGATTAAAGCTACAGC
*
57048692 GACAAATCTTAC
65 AACAAATCTTAC
57048704 TTTTCAAAAG
Statistics
Matches: 151, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
100 97 0.64
101 54 0.36
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (100 bp):
ATTAAAGCCACAACGGTGAATCTTGCTTCTCTGACATTGCGATTAAAAAGATTAAAGCTACAGCA
ACAAATCTTACCTCCCAGGCGGTGCAGTGGAATAA
Found at i:57049049 original size:87 final size:85
Alignment explanation
Indices: 57048825--57049066 Score: 229
Period size: 87 Copynumber: 2.8 Consensus size: 85
57048815 GATTGAAGCC
* * *
57048825 AGAGATCTTATCTCCCTGAGATTATAGCGGAGCAGATCAAAAACACTA-TCTTATCTCCCTGAAG
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATC-ACAA-A-TAGTCTTATCTCCCTGAAG
** * **
57048889 TTACAGTGGAGTGGATTAAAAAT
63 TTACAACGGAGTAGACCAAAAAT
* * * * * * * *
57048912 AAAGGATCTTATTTCTCTGAGGTTACAGTAGAGTAGATCGC--ATCAGGTCTTATCTCCCTGAGG
1 AGA-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATCACAAAT-A-GTCTTATCTCCCTGAAG
57048975 TTACAACGGAGTAGACCAAAGAATT
63 TTACAACGGAGTAGACCAAA-AA-T
* *
57049000 TGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCACAAATAGTCTTATCTCCTTGAAGTTA
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCACAAATAGTCTTATCTCCCTGAAGTTA
57049065 CA
66 CA
57049067 GTAGAGCAGA
Statistics
Matches: 121, Mismatches: 26, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
83 1 0.01
84 2 0.02
86 30 0.25
87 55 0.45
88 31 0.26
89 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (85 bp):
AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCACAAATAGTCTTATCTCCCTGAAGTTA
CAACGGAGTAGACCAAAAAT
Found at i:57050598 original size:3 final size:3
Alignment explanation
Indices: 57050590--57050628 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
57050580 AGCCCTATAC
57050590 TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT T-T TACT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T
57050629 TAAATTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 26 0.79
4 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:57050852 original size:4 final size:4
Alignment explanation
Indices: 57050843--57050884 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
57050833 TAATATTTAT
57050843 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
57050885 TTTCATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:57051329 original size:110 final size:109
Alignment explanation
Indices: 57051134--57051437 Score: 427
Period size: 110 Copynumber: 2.8 Consensus size: 109
57051124 CTAAATAAAT
*
57051134 GCAATGTTTTGCGTTTGGAGATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
* *
57051199 TTCAACCAAATGGCTTAATATCCCTTTTAAAAAATT-TAAAATAAG
66 TTCAACCAAATGGCTAAATATCCC--TTAAAAAATTACAAAATAAG
* * *
57051244 GCAATGATTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTAGGTGTCGATTTTTCTCG
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
* *
57051309 TTCAACCAAATAGCTAAATATCCCTTCAAAAATTACAAAATAAG
66 TTCAACCAAATGGCTAAATATCCCTTAAAAAATTACAAAATAAG
* * * *
57051353 GCAATGTTTTGCGTCTGGAAATTTGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCTCG
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
* * *
57051415 TTTATCCAAATGGCCAAATATCC
66 TTCAACCAAATGGCTAAATATCC
57051438 TCTCGAATTT
Statistics
Matches: 174, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
106 26 0.15
108 33 0.19
109 32 0.18
110 83 0.48
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (109 bp):
GCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
TTCAACCAAATGGCTAAATATCCCTTAAAAAATTACAAAATAAG
Found at i:57052362 original size:23 final size:23
Alignment explanation
Indices: 57052307--57052362 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
57052297 AAATATTTAT
**
57052307 TATTAATATATTTATAATTTTAA
1 TATTAATATATTTATAATTAAAA
* *
57052330 TA-TATGTATATTTATTATTAAAA
1 TATTA-ATATATTTATAATTAAAA
57052353 TATTAATATA
1 TATTAATATA
57052363 AATATTTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
22 2 0.08
23 22 0.85
24 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTAATATATTTATAATTAAAA
Found at i:57052422 original size:22 final size:23
Alignment explanation
Indices: 57052384--57052426 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
57052374 ATAATATATG
57052384 AATAATATTATTTAAAATTTAAA
1 AATAATATTATTTAAAATTTAAA
*
57052407 AATATTATT-TTTAAAATTTA
1 AATAATATTATTTAAAATTTA
57052427 TTATTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATAATATTATTTAAAATTTAAA
Found at i:57052427 original size:13 final size:14
Alignment explanation
Indices: 57052405--57052438 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
57052395 TTAAAATTTA
*
57052405 AAAATATTATTTTT
1 AAAATATTATTATT
57052419 AAAAT-TTATTATT
1 AAAATATTATTATT
57052432 AAAATAT
1 AAAATAT
57052439 AAATGTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAAATATTATTATT
Found at i:57052485 original size:29 final size:31
Alignment explanation
Indices: 57052427--57052492 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
57052417 TTAAAATTTA
*
57052427 TTATTAAAATATAAATGTAATATTAAATAAT
1 TTATTAAAATATAAATCTAATATTAAATAAT
57052458 TTATTAAAATAATAAA-CT-ATATT-AATAAT
1 TTATTAAAAT-ATAAATCTAATATTAAATAAT
57052487 TTATTA
1 TTATTA
57052493 TATTATGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 12 0.36
30 5 0.15
31 11 0.33
32 5 0.15
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (31 bp):
TTATTAAAATATAAATCTAATATTAAATAAT
Found at i:57055678 original size:36 final size:36
Alignment explanation
Indices: 57055638--57055722 Score: 104
Period size: 34 Copynumber: 2.4 Consensus size: 36
57055628 AACATTTATT
57055638 TTTTTGAAAACACGAAAAAAATT-TAAAACACGGGAA
1 TTTTTGAAAACACG-AAAAAATTCTAAAACACGGGAA
* * * *
57055674 TTTTTGAAAACATG-AAAATTTCTGAAACACTGGAA
1 TTTTTGAAAACACGAAAAAATTCTAAAACACGGGAA
57055709 -TTTTGAAAACACGA
1 TTTTTGAAAACACGA
57055723 GAATTCTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
34 18 0.43
35 11 0.26
36 13 0.31
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (36 bp):
TTTTTGAAAACACGAAAAAATTCTAAAACACGGGAA
Found at i:57055683 original size:18 final size:18
Alignment explanation
Indices: 57055638--57055782 Score: 122
Period size: 18 Copynumber: 8.2 Consensus size: 18
57055628 AACATTTATT
*
57055638 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-GAAA
** *
57055657 AATTT-AAAACACGGGAA
1 TTTTTGAAAACACGGAAA
* *
57055674 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGGAAA
*
57055692 TTTCTG-AAACACTGG-AA
1 TTTTTGAAAACAC-GGAAA
57055709 -TTTTGAAAACAC-GAGAA
1 TTTTTGAAAACACGGA-AA
*
57055726 TTCTTGAAAACAC-GAAGA
1 TTTTTGAAAACACGGAA-A
*
57055744 TTTTTTAAAACACGGAAA
1 TTTTTGAAAACACGGAAA
*
57055762 TTTTTGAAAATACGGAAA
1 TTTTTGAAAACACGGAAA
57055780 TTT
1 TTT
57055783 GAAATACGGA
Statistics
Matches: 100, Mismatches: 18, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
15 1 0.01
16 4 0.04
17 21 0.21
18 68 0.68
19 6 0.06
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
TTTTTGAAAACACGGAAA
Found at i:57055738 original size:70 final size:70
Alignment explanation
Indices: 57055639--57055770 Score: 158
Period size: 70 Copynumber: 1.9 Consensus size: 70
57055629 ACATTTATTT
* * *
57055639 TTTTGAAAACACGAAAAAAATTTAAAACACG-GGAATTTTTGAAAACATGAAAATTTCTGAAACA
1 TTTTGAAAACACGAAAAAAATTGAAAACACGAAG-ATTTTTGAAAACACGAAAATTTCTGAAACA
57055703 CTGGAA
65 CTGGAA
* *** * * *
57055709 TTTTGAAAACACGAGAATTCTTGAAAACACGAAGATTTTTTAAAACACGGAAATTTTTGAAA
1 TTTTGAAAACACGAAAAAAATTGAAAACACGAAGATTTTTGAAAACACGAAAATTTCTGAAA
57055771 ATACGGAAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
70 50 0.98
71 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.28
Consensus pattern (70 bp):
TTTTGAAAACACGAAAAAAATTGAAAACACGAAGATTTTTGAAAACACGAAAATTTCTGAAACAC
TGGAA
Found at i:57055789 original size:15 final size:16
Alignment explanation
Indices: 57055750--57055796 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
57055740 AAGATTTTTT
*
57055750 AAAACACGGAAATTTTTG
1 AAAATACGGAAA--TTTG
57055768 AAAATACGGAAATTTG
1 AAAATACGGAAATTTG
57055784 -AAATACGGAAATT
1 AAAATACGGAAATT
57055797 ATTTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 13 0.46
16 4 0.14
18 11 0.39
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (16 bp):
AAAATACGGAAATTTG
Found at i:57055800 original size:18 final size:19
Alignment explanation
Indices: 57055729--57055800 Score: 59
Period size: 18 Copynumber: 4.1 Consensus size: 19
57055719 ACGAGAATTC
*
57055729 TTGAAAACAC-GAAGATT-T
1 TTGAAAATACGGAA-ATTAT
* *
57055747 TTTAAAACACGGAAATT-T
1 TTGAAAATACGGAAATTAT
57055765 TTGAAAATACGG-AA--AT
1 TTGAAAATACGGAAATTAT
57055781 TTG-AAATACGGAAATTAT
1 TTGAAAATACGGAAATTAT
57055799 TT
1 TT
57055801 TTAAAAAACA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
15 8 0.17
16 6 0.13
17 2 0.04
18 27 0.59
19 3 0.07
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.32
Consensus pattern (19 bp):
TTGAAAATACGGAAATTAT
Found at i:57056406 original size:20 final size:20
Alignment explanation
Indices: 57056367--57056408 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
57056357 CAATTCAGGC
* **
57056367 CTTTTTTGTTTTTTGTTTTT
1 CTTTTTTCTTTTTTCCTTTT
57056387 CTTTTTTCTTTTTTCCTTTT
1 CTTTTTTCTTTTTTCCTTTT
57056407 CT
1 CT
57056409 CCTCTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (20 bp):
CTTTTTTCTTTTTTCCTTTT
Found at i:57057376 original size:29 final size:29
Alignment explanation
Indices: 57057286--57057443 Score: 124
Period size: 30 Copynumber: 5.3 Consensus size: 29
57057276 AAATATGGGC
* *
57057286 CAAAATGTAATTTCTTGAGAGTTTAGGGGT
1 CAAAATGTAATTT-TAGAAAGTTTAGGGGT
* * * * * *
57057316 TAAAGTGAAATTTTGAGAAAGTATAAGAGT
1 CAAAATGTAATTTT-AGAAAGTTTAGGGGT
*
57057346 CAAAATGTAATTTTAGAAAGTTTTGGGGT
1 CAAAATGTAATTTTAGAAAGTTTAGGGGT
*
57057375 CAAAATGCAAATTTTAGAAAAGTTT-GGGGT
1 CAAAATG-TAATTTTAG-AAAGTTTAGGGGT
**
57057405 C-AAATGTAAATTTT-GAAAAGTACAGGGGT
1 CAAAATGT-AATTTTAG-AAAGTTTAGGGGT
*
57057434 TAAAATGTAA
1 CAAAATGTAA
57057444 AAAATTAAAA
Statistics
Matches: 102, Mismatches: 20, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
28 7 0.07
29 37 0.36
30 51 0.50
31 7 0.07
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.32
Consensus pattern (29 bp):
CAAAATGTAATTTTAGAAAGTTTAGGGGT
Found at i:57058693 original size:80 final size:78
Alignment explanation
Indices: 57057635--57059420 Score: 2096
Period size: 80 Copynumber: 22.8 Consensus size: 78
57057625 CTCGACGTGC
* * * *
57057635 GACCCGAGACTCAACTCACCTCTTGGATTATGAGTTGA-TCTTTGAAAAAA-A-AAA-TCAAAAA
1 GACCCGAGGCTCAACTCACCTC-TGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAA
* ** *
57057696 TACAT-CGACA-TGT
65 -AAATACCTCAGCGT
* * * *
57057709 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAAACATG-AA-TT--GA
1 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAACA-GAAATTTAAAA
*
57057768 AAAATACCTCGGCGT
64 AAAATACCTCAGCGT
* * * * *
57057783 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-TTTTTTTG-AAAAACAAAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAA
* *
57057846 AAGTACCTC-GACAT
65 AAATACCTCAG-CGT
** * ** * *
57057860 GGTCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTG-AAAAACAGAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAA
*
57057924 AAATACCTCAGCAT
65 AAATACCTCAGCGT
** * * * *
57057938 GGTCCAAGGCTCAACTCACCTCTTGGAATATGAGTTGA-TTTTTG-AAAAACAGAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTC-TGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAA
* *
57058001 AAATACCTCGGCAT
65 AAATACCTCAGCGT
** * * * *
57058015 GGTCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAAACAGAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAA
* *
57058078 AAATACCTCGGCAT
65 AAATACCTCAGCGT
** * * * *
57058092 GGTCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAAACATAAATTTAAAA
1 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-TTTTTTGAAAAAACAGAAATTTAAAA
* *
57058156 GAAATACCTCGGCGT
64 AAAATACCTCAGCGT
* * *
57058171 GACCCGAGGCTCAACTCACCTCTCGCGA-TATGAGTTGA--TTTTAAAAAAGACATAAA-TT---
1 GACCCGAGGCTCAACTCACCTCT-G-TATTATGAGTTGATTTTTTGAAAAA-ACAGAAATTTAAA
*
57058229 AAAAATACCTCAGCAT
63 AAAAATACCTCAGCGT
* * *
57058245 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA---TTTAAAAAAAAAGACA--TAAATTA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAA--A
57058305 AAAATACCTCAGCGT
64 AAAATACCTCAGCGT
57058320 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCAGAAATTT---AA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAA-CAGAAATTTAAAAA
*
57058382 AAATACCTCAGCAT
65 AAATACCTCAGCGT
*
57058396 GACCCGAGACTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAAAACAGAAATTT---
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG---AAAAAACAGAAATTTAAA
57058458 AAAAATACCTCAGCGT
63 AAAAATACCTCAGCGT
* *
57058474 GACTCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAATTAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATT---TAAA
57058539 AAAAATACCTCAGCGT
63 AAAAATACCTCAGCGT
57058555 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTTGAAAAAAGCAGAAATTTAAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA--TTTTTTGAAAAAA-CAGAAATTT-AA
57058620 AAAAAATACCTCAGCGT
62 AAAAAATACCTCAGCGT
57058637 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCAGAAATTT---AA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAA-CAGAAATTTAAAAA
57058699 AAATACCTCAGCGT
65 AAATACCTCAGCGT
57058713 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAATTAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAA-T---TTAA
*
57058778 AAAAAATACATCAGCGT
62 AAAAAATACCTCAGCGT
* * *
57058795 AACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTAAAAAAAGTAGAAATTTTAAAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAA-CAGAAA-TTTAAAA
*
57058860 AAAATACCTCAGCAT
64 AAAATACCTCAGCGT
*
57058875 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAGAAAACAGAAATTAAAAAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAA-AAAACAGAAATT-TAAAA
57058940 AAAATACCTCAGCGT
64 AAAATACCTCAGCGT
*
57058955 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTTGACAAAAGCAGAAATTTAAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA--TTTTTTGA-AAAAACAGAAATTT-AA
57059020 AAAAAATACCTCAGCGT
62 AAAAAATACCTCAGCGT
57059037 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCAGAAATTT---AA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAA-CAGAAATTTAAAAA
57059099 AAATACCTCAGCGT
65 AAATACCTCAGCGT
57059113 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAATTAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAA-T---TTAA
*
57059178 AAAAAATACATCAGCGT
62 AAAAAATACCTCAGCGT
* * *
57059195 AACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTAAAAAAAGTAGAAATTTTAAAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAA-CAGAAA-TTTAAAA
*
57059260 AAAATACCTCAGCAT
64 AAAATACCTCAGCGT
*
57059275 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAGAAAACAGAAATTAAAAAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAA-AAAACAGAAATT-TAAAA
57059340 AAAATACCTCAGCGT
64 AAAATACCTCAGCGT
* *
57059355 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAGAAATAGAATTTTAAAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAA-AAACAGAAATTTAAAA
57059420 A
64 A
57059421 TATTTCTTGA
Statistics
Matches: 1556, Mismatches: 83, Indels: 140
0.87 0.05 0.08
Matches are distributed among these distances:
70 1 0.00
71 4 0.00
72 13 0.01
73 21 0.01
74 126 0.08
75 83 0.05
76 198 0.13
77 199 0.13
78 153 0.10
79 93 0.06
80 300 0.19
81 73 0.05
82 256 0.16
83 28 0.02
84 8 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (78 bp):
GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAAA
AATACCTCAGCGT
Found at i:57058750 original size:158 final size:154
Alignment explanation
Indices: 57057635--57059420 Score: 2053
Period size: 158 Copynumber: 11.4 Consensus size: 154
57057625 CTCGACGTGC
* * * *
57057635 GACCCGAGACTCAACTCACCTCTTGGATTATGAGTTGA-TCTTTGAAAAAA-A-AAA-TCAAAAA
1 GACCCGAGGCTCAACTCACCTC-TGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAA
* ** * * * *
57057696 TACAT-CGACA-TGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAA
65 -AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAA
* *
57057757 ACATG-AA-TTGAAAAATACCTCGGCGT
128 ACA-GAAATTTAAAAAATACCTCAGCGT
* * * * *
57057783 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-TTTTTTTG-AAAAACAAAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAA
* * ** * ** *
57057846 AAGTACCTC-GACATGGTCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTG-AAAA
65 AAATACCTCAG-CGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAA
*
57057909 ACAGAAATTTAAAAGAAATACCTCAGCAT
128 ACAGAAATTT-AAA-AAATACCTCAGCGT
** * * * *
57057938 GGTCCAAGGCTCAACTCACCTCTTGGAATATGAGTTGA-TTTTTG-AAAAACAGAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTC-TGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAA
* * ** * * *
57058001 AAATACCTCGGCATGGTCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAAA
65 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAA
* *
57058064 CAGAAATTTAAAAGAAATACCTCGGCAT
129 CAGAAATTT-AAA-AAATACCTCAGCGT
** * * * *
57058092 GGTCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAAACATAAATTTAAAA
1 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-TTTTTTGAAAAAACAGAAATTTAAAA
* * * *
57058156 GAAATACCTCGGCGTGACCCGAGGCTCAACTCACCTCTCGCGA-TATGAGTTGA--TTTTAAAAA
64 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-G-TATTATGAGTTGATTTTTTGAAAA
* *
57058218 AGACATAAA-TT-AAAAATACCTCAGCAT
127 A-ACAGAAATTTAAAAAATACCTCAGCGT
* * *
57058245 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA---TTTAAAAAAAAAGACA--TAAATTA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAA--A
57058305 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAA
64 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAA
*
57058370 GCAGAAATTT-AAAAATACCTCAGCAT
129 -CAGAAATTTAAAAAATACCTCAGCGT
*
57058396 GACCCGAGACTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAAAACAGAAATTT---
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG---AAAAAACAGAAATTTAAA
*
57058458 AAAAATACCTCAGCGTGACTCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAA
63 AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAA
57058523 ACAGAAATTAAATTAAAAAAATACCTCAGCGT
128 ACAGAAA-T---TT-AAAAAATACCTCAGCGT
57058555 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTTGAAAAAAGCAGAAATTTAAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA--TTTTTTGAAAAAA-CAGAAATTT-AA
57058620 AAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAA
62 AAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAA
57058685 AAGCAGAAATTT-AAAAATACCTCAGCGT
127 AA-CAGAAATTTAAAAAATACCTCAGCGT
57058713 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAATTAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAA-T---TTAA
* * *
57058778 AAAAAATACATCAGCGTAACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTAAAAA
62 AAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAA
* *
57058843 AAGTAGAAATTTTAAAAAAAATACCTCAGCAT
127 AA-CAGAAA-TTT--AAAAAATACCTCAGCGT
*
57058875 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAGAAAACAGAAATTAAAAAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAA-AAAACAGAAATT-TAAAA
57058940 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTTGACAA
64 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA--TTTTTTGA-AA
*
57059005 AAGCAGAAATTTAAAAAAAAATACCTCAGCGT
126 AAACAGAAATTT---AAAAAATACCTCAGCGT
57059037 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCAGAAATTT---AA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAA-CAGAAATTTAAAAA
57059099 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAC
65 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAC
*
57059164 AGAAATTAAATTAAAAAAAATACATCAGCGT
130 AGAAA-T---TT--AAAAAATACCTCAGCGT
* * *
57059195 AACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTAAAAAAAGTAGAAATTTTAAAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAA-CAGAAA-TTTAAAA
*
57059260 AAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAGAAA
64 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAA-AAA
*
57059325 ACAGAAATTAAAAAAAAAATACCTCAGCGT
128 ACAGAAATT---TAAAAAATACCTCAGCGT
* *
57059355 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAGAAATAGAATTTTAAAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAA-AAACAGAAATTTAAAA
57059420 A
64 A
57059421 TATTTCTTGA
Statistics
Matches: 1472, Mismatches: 85, Indels: 150
0.86 0.05 0.09
Matches are distributed among these distances:
147 11 0.01
148 51 0.03
149 51 0.03
150 21 0.01
151 90 0.06
152 27 0.02
153 42 0.03
154 146 0.10
155 134 0.09
156 100 0.07
157 19 0.01
158 256 0.17
159 73 0.05
160 122 0.08
161 22 0.01
162 211 0.14
163 90 0.06
164 6 0.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (154 bp):
GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAAA
AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACA
GAAATTTAAAAAATACCTCAGCGT
Found at i:57060299 original size:21 final size:20
Alignment explanation
Indices: 57060275--57060337 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
57060265 TTCATCTTGA
57060275 TTTTTCTTTTTTCTTTTCTTT
1 TTTTTCTTTTTTCTTTT-TTT
*
57060296 TTTTTCTTTTTTGTTTTTTT
1 TTTTTCTTTTTTCTTTTTTT
*
57060316 TTGTTGT-TTTTTTGTTTTTTT
1 TT-TT-TCTTTTTTCTTTTTTT
57060337 T
1 T
57060338 CTATTTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 5 0.13
21 33 0.85
22 1 0.03
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (20 bp):
TTTTTCTTTTTTCTTTTTTT
Found at i:57060300 original size:14 final size:13
Alignment explanation
Indices: 57060275--57060346 Score: 67
Period size: 12 Copynumber: 5.5 Consensus size: 13
57060265 TTCATCTTGA
*
57060275 TTTTTCTTTTTTC
1 TTTTTTTTTTTTC
57060288 TTTTCTTTTTTTTC
1 TTTT-TTTTTTTTC
*
57060302 TTTTTTGTTTTT-
1 TTTTTTTTTTTTC
* *
57060314 TTTTGTTGTTTT-
1 TTTTTTTTTTTTC
*
57060326 TTTGTTTTTTTTC
1 TTTTTTTTTTTTC
57060339 TATTTTTT
1 T-TTTTTT
57060347 AAGCATAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
12 18 0.38
13 12 0.26
14 17 0.36
ACGTcount: A:0.01, C:0.07, G:0.06, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:57060345 original size:20 final size:18
Alignment explanation
Indices: 57060275--57060346 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 18
57060265 TTCATCTTGA
57060275 TTTTTCTTTTTTCTTTTCTTT
1 TTTTTC-TTTTT-TTTT-TTT
57060296 TTTTTCTTTTTTGTTTTTT
1 TTTTTCTTTTTT-TTTTTT
* *
57060315 TTTGTT-GTTTTTTTGTTT
1 TTT-TTCTTTTTTTTTTTT
57060333 TTTTTCTATTTTTT
1 TTTTTCT-TTTTTT
57060347 AAGCATAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
17 2 0.05
18 8 0.18
19 18 0.41
20 10 0.23
21 6 0.14
ACGTcount: A:0.01, C:0.07, G:0.06, T:0.86
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTTTT
Found at i:57060346 original size:1 final size:1
Alignment explanation
Indices: 57060275--57060337 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
57060265 TTCATCTTGA
* * * * * * * *
57060275 TTTTTCTTTTTTCTTTTCTTTTTTTTCTTTTTTGTTTTTTTTTGTTGTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
57060338 CTATTTTTTA
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (1 bp):
T
Found at i:57066090 original size:18 final size:17
Alignment explanation
Indices: 57066069--57066339 Score: 192
Period size: 18 Copynumber: 15.5 Consensus size: 17
57066059 ACATTTATTT
57066069 TTTTGAAAACACGAAAAA
1 TTTTGAAAACACG-AAAA
* *
57066087 TTTTTAAAACACGAGAA
1 TTTTGAAAACACGAAAA
57066104 TTTT-AAAGACACGAAAA
1 TTTTGAAA-ACACGAAAA
* *
57066121 TTCTTAAAAATACGAAAA
1 TT-TTGAAAACACGAAAA
*
57066139 TTTTTGAAAACACGGAAA
1 -TTTTGAAAACACGAAAA
* * *
57066157 TTTTTAAAACACGGGAAT
1 TTTTGAAAACAC-GAAAA
**
57066175 TTTTGAAAACTTGAAAA
1 TTTTGAAAACACGAAAA
*
57066192 TTTTTGAAAACACGGAAA
1 -TTTTGAAAACACGAAAA
* * *
57066210 TTTTTAAAACACAGGAAT
1 TTTTGAAAACAC-GAAAA
57066228 TTTTGAAAAC-CTGAAAA
1 TTTTGAAAACAC-GAAAA
*
57066245 TTTTTG-AAACACCG-GAA
1 -TTTTGAAAACA-CGAAAA
**
57066262 TTTTGAAAACACGAGGA
1 TTTTGAAAACACGAAAA
*
57066279 TTCTTGAAAACACGAAGAT
1 TT-TTGAAAACACGAA-AA
* *
57066298 TTTTTAAAACACGGAAAT
1 TTTTGAAAACAC-GAAAA
* *
57066316 TTTTGAAAATACGGAAA
1 TTTTGAAAACACGAAAA
57066333 -TTTGAAA
1 TTTTGAAA
57066340 TACGGAAGTT
Statistics
Matches: 205, Mismatches: 33, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
16 17 0.08
17 64 0.31
18 113 0.55
19 11 0.05
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:57066141 original size:35 final size:35
Alignment explanation
Indices: 57066068--57066335 Score: 206
Period size: 35 Copynumber: 7.6 Consensus size: 35
57066058 AACATTTATT
* *
57066068 TTTTTGAAAACACGAAAAATTTTTAAAACACGAGAA
1 TTTTTGAAAACACG-AAAATTTTAAAAACACGAAAA
*
57066104 -TTTT-AAAGACACGAAAATTCTTAAAAATACGAAAA
1 TTTTTGAAA-ACACGAAAATT-TTAAAAACACGAAAA
* * **
57066139 TTTTTGAAAACACGGAAATTTTTAAAACACGGGAA
1 TTTTTGAAAACACGAAAATTTTAAAAACACGAAAA
** * *
57066174 TTTTTGAAAACTTGAAAATTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGAAAA-TTTTAAAAACACGAAAA
* * *
57066210 TTTTT-AAAACACAGGAATTTTTGAAAAC-CTGAAAA
1 TTTTTGAAAACAC-GAAAATTTTAAAAACAC-GAAAA
* * **
57066245 TTTTTG-AAACACCG-GAATTTTGAAAACACGAGGA
1 TTTTTGAAAACA-CGAAAATTTTAAAAACACGAAAA
* * * *
57066279 TTCTTGAAAACACGAAGATTTTTTAAAACACGGAAA
1 TTTTTGAAAACACGAA-AATTTTAAAAACACGAAAA
* *
57066315 TTTTTGAAAATACGGAAATTT
1 TTTTTGAAAACACGAAAATTT
57066336 GAAATACGGA
Statistics
Matches: 186, Mismatches: 33, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
34 31 0.17
35 87 0.47
36 65 0.35
37 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTAAAAACACGAAAA
Found at i:57066342 original size:15 final size:16
Alignment explanation
Indices: 57066303--57066346 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
57066293 AAGATTTTTT
*
57066303 AAAACACGGAAATTTTTG
1 AAAATACGGAAA--TTTG
57066321 AAAATACGGAAATTTG
1 AAAATACGGAAATTTG
57066337 -AAATACGGAA
1 AAAATACGGAA
57066347 GTTATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 10 0.40
16 4 0.16
18 11 0.44
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23
Consensus pattern (16 bp):
AAAATACGGAAATTTG
Found at i:57066359 original size:53 final size:52
Alignment explanation
Indices: 57066068--57066324 Score: 263
Period size: 53 Copynumber: 4.8 Consensus size: 52
57066058 AACATTTATT
* *
57066068 TTTTTGAAAACACGAAAAATTTTTAAAACAC-GAGAA-TTTTAAAGACAC-GAAAA
1 TTTTTGAAAACATG-AAAATTTTTAAAACACGGA-AATTTTTAAA-ACACAG-GAA
* * * * *
57066121 TTCTTAAAAATACGAAAATTTTTGAAAACACGGAAATTTTTAAAACACGGGAA
1 TTTTTGAAAACATGAAAATTTTT-AAAACACGGAAATTTTTAAAACACAGGAA
*
57066174 TTTTTGAAAACTTGAAAATTTTTGAAAACACGGAAATTTTTAAAACACAGGAA
1 TTTTTGAAAACATGAAAATTTTT-AAAACACGGAAATTTTTAAAACACAGGAA
* * *
57066227 TTTTTGAAAACCTGAAAATTTTTGAAACACCGG-AATTTTGAAAACACGAGG-A
1 TTTTTGAAAACATGAAAATTTTTAAAACA-CGGAAATTTTTAAAACAC-AGGAA
* * *
57066279 TTCTTGAAAACACGAAGATTTTTTAAAACACGGAAATTTTTGAAAA
1 TTTTTGAAAACATGAA-AATTTTTAAAACACGGAAATTTTT-AAAA
57066325 TACGGAAATT
Statistics
Matches: 176, Mismatches: 19, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
52 44 0.25
53 118 0.67
54 14 0.08
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (52 bp):
TTTTTGAAAACATGAAAATTTTTAAAACACGGAAATTTTTAAAACACAGGAA
Found at i:57066936 original size:6 final size:7
Alignment explanation
Indices: 57066919--57066951 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
57066909 AATTCGGGCC
57066919 TTTTTTG
1 TTTTTTG
57066926 TTTTTTG
1 TTTTTTG
57066933 -TTTTTG
1 TTTTTTG
57066939 TTTTTTG
1 TTTTTTG
57066946 TTTTTT
1 TTTTTT
57066952 TCTTTTCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:57066957 original size:13 final size:13
Alignment explanation
Indices: 57066920--57066950 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
57066910 ATTCGGGCCT
57066920 TTTTTGTTTTTTG
1 TTTTTGTTTTTTG
57066933 TTTTTGTTTTTTG
1 TTTTTGTTTTTTG
57066946 TTTTT
1 TTTTT
57066951 TTCTTTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (13 bp):
TTTTTGTTTTTTG
Found at i:57067137 original size:19 final size:20
Alignment explanation
Indices: 57067115--57067152 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
57067105 TGGGCCTGGC
*
57067115 CTGCTGCTGTTT-TTTTTTG
1 CTGCTGCTATTTCTTTTTTG
57067134 CTGCTGCTATTTCTTTTTT
1 CTGCTGCTATTTCTTTTTT
57067153 TCTTTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.03, C:0.18, G:0.16, T:0.63
Consensus pattern (20 bp):
CTGCTGCTATTTCTTTTTTG
Found at i:57067173 original size:13 final size:13
Alignment explanation
Indices: 57067155--57067179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57067145 TCTTTTTTTC
57067155 TTTTTTTGGGCTA
1 TTTTTTTGGGCTA
57067168 TTTTTTTGGGCT
1 TTTTTTTGGGCT
57067180 GCTGGGTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.08, G:0.24, T:0.64
Consensus pattern (13 bp):
TTTTTTTGGGCTA
Found at i:57067269 original size:9 final size:9
Alignment explanation
Indices: 57067255--57067337 Score: 71
Period size: 9 Copynumber: 9.2 Consensus size: 9
57067245 TGTATTTCTT
57067255 TTTTTTTTC
1 TTTTTTTTC
57067264 TTTTTTTT-
1 TTTTTTTTC
*
57067272 TATTTTTTC
1 TTTTTTTTC
*
57067281 TTCTTTTTC
1 TTTTTTTTC
* *
57067290 TTTCTCTT-
1 TTTTTTTTC
*
57067298 TTTTCTTTC
1 TTTTTTTTC
*
57067307 TCTTTTTTC
1 TTTTTTTTC
*
57067316 TCTTTTTTC
1 TTTTTTTTC
57067325 TTTCTTTCTTC
1 TTT-TTT-TTC
57067336 TT
1 TT
57067338 CTTCCTTCCC
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
8 12 0.21
9 38 0.66
10 3 0.05
11 5 0.09
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:57067271 original size:13 final size:13
Alignment explanation
Indices: 57067255--57067334 Score: 83
Period size: 13 Copynumber: 6.2 Consensus size: 13
57067245 TGTATTTCTT
57067255 TTTTTTTTCTTT-
1 TTTTTTTTCTTTC
*
57067267 TTTTTTATTTTTTC
1 TTTTTT-TTCTTTC
*
57067281 TTCTTTTTCTTTC
1 TTTTTTTTCTTTC
*
57067294 TCTTTTTTCTTTC
1 TTTTTTTTCTTTC
*
57067307 TCTTTTTTCTCTT-
1 TTTTTTTTCT-TTC
*
57067320 TTTTCTTTCTTTC
1 TTTTTTTTCTTTC
57067333 TT
1 TT
57067335 CTTCTTCCTT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
12 8 0.14
13 42 0.74
14 7 0.12
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTTTCTTTC
Found at i:57067279 original size:17 final size:17
Alignment explanation
Indices: 57067253--57067337 Score: 70
Period size: 17 Copynumber: 4.9 Consensus size: 17
57067243 GATGTATTTC
57067253 TTTTTTTTTTCTT-TTT
1 TTTTTTTTTTCTTCTTT
57067269 TTTTATTTTTTCTTCTTT
1 TTTT-TTTTTTCTTCTTT
57067287 TTCTTTCTCTTTT-TTC-TT
1 TT-TTT-T-TTTTCTTCTTT
* *
57067305 TCTCTTTTTTC-TCTTT
1 TTTTTTTTTTCTTCTTT
*
57067321 TTTCTTTCTTTCTTCTT
1 TTT-TTTTTTTCTTCTT
57067338 CTTCCTTCCC
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
15 6 0.11
16 9 0.16
17 17 0.31
18 13 0.24
19 6 0.11
20 4 0.07
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTTTTTCTTCTTT
Found at i:57067299 original size:22 final size:22
Alignment explanation
Indices: 57067251--57067331 Score: 112
Period size: 22 Copynumber: 3.7 Consensus size: 22
57067241 GTGATGTATT
*
57067251 TCTTTTTTTTTTCTTTTTTTT-
1 TCTTTTTTCTTTCTTTTTTTTC
*
57067272 TATTTTTTC-TTCTTTTTCTTTC
1 TCTTTTTTCTTTCTTTTT-TTTC
*
57067294 TCTTTTTTCTTTCTCTTTTTTC
1 TCTTTTTTCTTTCTTTTTTTTC
57067316 TCTTTTTTCTTTCTTT
1 TCTTTTTTCTTTCTTT
57067332 CTTCTTCTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.15
21 10 0.19
22 27 0.52
23 7 0.13
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (22 bp):
TCTTTTTTCTTTCTTTTTTTTC
Found at i:57067306 original size:26 final size:26
Alignment explanation
Indices: 57067277--57067340 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 26
57067267 TTTTTTATTT
57067277 TTTCTTCTTTTTCTTTCTCTTTTTTC
1 TTTCTTCTTTTTCTTTCTCTTTTTTC
57067303 TTTC-TC--TTT-TTTCTCTTTTTTC
1 TTTCTTCTTTTTCTTTCTCTTTTTTC
*
57067325 TTTCTTTCTTCTTCTT
1 TTTC-TTCTTTTTCTT
57067341 CCTTCCCTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
22 17 0.53
23 3 0.09
24 2 0.06
25 2 0.06
26 6 0.19
27 2 0.06
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTCTTCTTTTTCTTTCTCTTTTTTC
Found at i:57067642 original size:23 final size:23
Alignment explanation
Indices: 57067598--57067642 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
57067588 GCCCTTTGGC
* *
57067598 TTGCTGCTTTTTGTTTGATTTTT
1 TTGCTGCTTTTTCTTAGATTTTT
57067621 TTGCTGCTGTTTTCTTAG-TTTT
1 TTGCTGCT-TTTTCTTAGATTTT
57067643 CTTTCTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.04, C:0.11, G:0.18, T:0.67
Consensus pattern (23 bp):
TTGCTGCTTTTTCTTAGATTTTT
Found at i:57068006 original size:30 final size:30
Alignment explanation
Indices: 57067966--57068044 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
57067956 ATAAAGGTCG
57067966 AAATGT-AATTTTAG-AAAGTTTTGGTG-TCA
1 AAATGTAAATTTTAGAAAAG-TTTGG-GATCA
*
57067995 AAATGTAAATTTTAGAAAAGTTTGGGATGA
1 AAATGTAAATTTTAGAAAAGTTTGGGATCA
*
57068025 AAATGTAAATTTCA-AAAAGT
1 AAATGTAAATTTTAGAAAAGT
57068045 ACAGGGGTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
29 13 0.29
30 28 0.62
31 4 0.09
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.35
Consensus pattern (30 bp):
AAATGTAAATTTTAGAAAAGTTTGGGATCA
Found at i:57072914 original size:27 final size:24
Alignment explanation
Indices: 57072875--57072947 Score: 67
Period size: 27 Copynumber: 2.8 Consensus size: 24
57072865 AAATTTATAC
57072875 TAATTAAAGAATAATTTTATCTAAATA
1 TAATTAAA-AATAATTTTAT-T-AATA
*
57072902 TAATTATAAAATATATTAATATTAATA
1 TAATTA-AAAATA-ATT-TTATTAATA
57072929 TAAATTAAAAAT-ATTTTAT
1 T-AATTAAAAATAATTTTAT
57072948 AATTTGAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
24 3 0.08
25 3 0.08
27 20 0.50
28 11 0.28
29 3 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (24 bp):
TAATTAAAAATAATTTTATTAATA
Found at i:57075641 original size:21 final size:21
Alignment explanation
Indices: 57075615--57075658 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
57075605 TTGGGGTGTT
*
57075615 ACAACCGTGTAACCTTTCCAC
1 ACAACCGTGTAACCCTTCCAC
57075636 ACAACCGTGTAACCCTTCCAC
1 ACAACCGTGTAACCCTTCCAC
57075657 AC
1 AC
57075659 GACCTGAGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.41, G:0.09, T:0.20
Consensus pattern (21 bp):
ACAACCGTGTAACCCTTCCAC
Found at i:57076436 original size:83 final size:82
Alignment explanation
Indices: 57076247--57076489 Score: 292
Period size: 83 Copynumber: 2.9 Consensus size: 82
57076237 GTGGTTTGTT
* * * *
57076247 CACAAACCCAGTGGCAGTTTGTTTAATCTGCGAA-TATGTTATGCACTCACAACAAGTGGTAGTT
1 CACAAACCCAGTGG-AGTTTGTTTAATCTGC-AACCATGTTGTGCACTCACAACAAGTGGCAGTA
*
57076311 ACTGAAAATATGTGGCTAGTC
64 ACTG-CAA-ATGTGGCTAGTC
* * * * *
57076332 CACAAACCCAGTGGCGATTTGTTTGATCTGCAACCATGTTGTGCATTCACAAAAAGTCGCAGTAA
1 CACAAACCCAGTGGAG-TTTGTTTAATCTGCAACCATGTTGTGCACTCACAACAAGTGGCAGTAA
57076397 CTGCAAATGTGGCTCA-TC
65 CTGCAAATGTGGCT-AGTC
* * *
57076415 CACAAACCCGGTGGTAGTTTGTTTAATTTGCAACCATGTTGTGCACTCACAACCAGTGGCAGTAA
1 CACAAACCCAGTGG-AGTTTGTTTAATCTGCAACCATGTTGTGCACTCACAACAAGTGGCAGTAA
57076480 CTGCAAATGT
65 CTGCAAATGT
57076490 TTTTATCTAA
Statistics
Matches: 136, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
83 75 0.55
84 7 0.05
85 54 0.40
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (82 bp):
CACAAACCCAGTGGAGTTTGTTTAATCTGCAACCATGTTGTGCACTCACAACAAGTGGCAGTAAC
TGCAAATGTGGCTAGTC
Found at i:57080289 original size:18 final size:18
Alignment explanation
Indices: 57080254--57080292 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
57080244 TTTTTTAGAG
* * *
57080254 TAAAAGTTTTATACATTT
1 TAAAAGTTGTAGAAATTT
57080272 TAAAAGTTGTAGAAATTT
1 TAAAAGTTGTAGAAATTT
57080290 TAA
1 TAA
57080293 TTATTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (18 bp):
TAAAAGTTGTAGAAATTT
Found at i:57086705 original size:2 final size:2
Alignment explanation
Indices: 57086698--57086729 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
57086688 AGATCAACAT
57086698 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
57086730 TACATATATA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:57089131 original size:16 final size:15
Alignment explanation
Indices: 57089107--57089136 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57089097 TTTTATGAAA
57089107 TTTTTTATATTTTTG
1 TTTTTTATATTTTTG
57089122 TTTTTCTATATTTTT
1 TTTTT-TATATTTTT
57089137 TAAAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTTATATTTTTG
Found at i:57092706 original size:21 final size:20
Alignment explanation
Indices: 57092662--57092708 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
57092652 ATAATTATGT
*
57092662 TTATTTTTTTAAATTAAGAG
1 TTATTTTTTTAAATTAAGAA
* *
57092682 TTATTTTTTTAACTTCATGAA
1 TTATTTTTTTAAATT-AAGAA
57092703 TTATTT
1 TTATTT
57092709 ATTTGTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (20 bp):
TTATTTTTTTAAATTAAGAA
Found at i:57093027 original size:24 final size:23
Alignment explanation
Indices: 57092979--57093049 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
57092969 ATGAGAAACC
* *
57092979 AAAATTTTATTTTATTTTAATTTT
1 AAAATTTTATTATATTTTTA-TTT
57093003 AAAATTTTATTATATTTTTTATTT
1 AAAATTTTATTATA-TTTTTATTT
* *
57093027 ATAATTTT-TAATAATTTTTATTT
1 AAAATTTTATTAT-ATTTTTATTT
57093050 TGATAATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 12 0.29
24 24 0.59
25 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
AAAATTTTATTATATTTTTATTT
Found at i:57093034 original size:13 final size:12
Alignment explanation
Indices: 57093007--57093048 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 12
57092997 AATTTTAAAA
*
57093007 TTTTATTATATT
1 TTTTATTATAAT
57093019 TTTTATTTATAAT
1 TTTTA-TTATAAT
57093032 TTTTA--ATAAT
1 TTTTATTATAAT
57093042 TTTTATT
1 TTTTATT
57093049 TTGATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 10 0.38
12 5 0.19
13 11 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTATTATAAT
Found at i:57093048 original size:23 final size:24
Alignment explanation
Indices: 57093000--57093049 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
57092990 TTATTTTAAT
* *
57093000 TTTAAAATTTTATTATATTTTTTA
1 TTTAAAATTTTATAATAATTTTTA
*
57093024 TTTATAATTTT-TAATAATTTTTA
1 TTTAAAATTTTATAATAATTTTTA
57093047 TTT
1 TTT
57093050 TGATAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTAAAATTTTATAATAATTTTTA
Found at i:57093055 original size:25 final size:24
Alignment explanation
Indices: 57092992--57093061 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
57092982 ATTTTATTTT
* * *
57092992 ATTTTAATTTTAAAATTTTATTATA
1 ATTTTTATTTTATAATTTT-TAATA
*
57093017 TTTTTTA-TTTATAATTTTTAATA
1 ATTTTTATTTTATAATTTTTAATA
57093040 ATTTTTATTTTGATAATATTTT
1 ATTTTTATTTT-ATAAT-TTTT
57093062 TGAATTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
23 10 0.27
24 13 0.35
25 10 0.27
26 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (24 bp):
ATTTTTATTTTATAATTTTTAATA
Found at i:57093080 original size:18 final size:16
Alignment explanation
Indices: 57093023--57093080 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 16
57093013 TATATTTTTT
57093023 ATTTATAATTTTTAATA
1 ATTT-TAATTTTTAATA
*
57093040 ATTTTTATTTTGATAATA
1 ATTTTAATTTT--TAATA
*
57093058 TTTTTGAATTTTTAATTA
1 ATTTT-AATTTTTAA-TA
57093076 ATTTT
1 ATTTT
57093081 TAAATTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.18
17 7 0.21
18 15 0.45
19 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
ATTTTAATTTTTAATA
Found at i:57096471 original size:151 final size:151
Alignment explanation
Indices: 57096197--57096508 Score: 615
Period size: 151 Copynumber: 2.1 Consensus size: 151
57096187 GAAAGATTAT
57096197 CAATTTAATAAAGAGATAGTTTGAGCTTCTCGACGATCCGCTTGACATGTTATGCAAATTGATAA
1 CAATTTAATAAAGAGATAGTTTGAGCTTCTCGACGATCCGCTTGACATGTTATGCAAATTGATAA
57096262 TCTACATGGAAAGGGAAAACAACGGGTTAAGCATATTGAATGCTTTGTAAATTCACAGGCAATAA
66 TCTACATGGAAAGGGAAAACAACGGGTTAAGCATATTGAATGCTTTGTAAATTCACAGGCAATAA
57096327 ACAACAACTTACATCCATTTA
131 ACAACAACTTACATCCATTTA
*
57096348 CAATTTAATAAAGAGATAGTTTGAGCTTCTCGACGATCCGCTTGACATGTTCTGCAAATTGATAA
1 CAATTTAATAAAGAGATAGTTTGAGCTTCTCGACGATCCGCTTGACATGTTATGCAAATTGATAA
57096413 TCTACATGGAAAGGGAAAACAACGGGTTAAGCATATTGAATGCTTTGTAAATTCACAGGCAATAA
66 TCTACATGGAAAGGGAAAACAACGGGTTAAGCATATTGAATGCTTTGTAAATTCACAGGCAATAA
57096478 ACAACAACTTACATCCATTTA
131 ACAACAACTTACATCCATTTA
57096499 CAATTTAATA
1 CAATTTAATA
57096509 CGATAAGCTA
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 160 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (151 bp):
CAATTTAATAAAGAGATAGTTTGAGCTTCTCGACGATCCGCTTGACATGTTATGCAAATTGATAA
TCTACATGGAAAGGGAAAACAACGGGTTAAGCATATTGAATGCTTTGTAAATTCACAGGCAATAA
ACAACAACTTACATCCATTTA
Found at i:57097392 original size:14 final size:14
Alignment explanation
Indices: 57097373--57097399 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57097363 ATAGTTTCAC
57097373 ATTTAAAATATAAA
1 ATTTAAAATATAAA
57097387 ATTTAAAATATAA
1 ATTTAAAATATAA
57097400 TAAAAAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTTAAAATATAAA
Found at i:57097875 original size:21 final size:22
Alignment explanation
Indices: 57097846--57097897 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
57097836 GAAAATATCC
57097846 ATTACTTTTC-ATAAAAATAGAT
1 ATTA-TTTTCAATAAAAATAGAT
* *
57097868 ATTATTTTCAATTAAAATATAT
1 ATTATTTTCAATAAAAATAGAT
57097890 ATTATTTT
1 ATTATTTT
57097898 GAAAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTATTTTCAATAAAAATAGAT
Found at i:57097913 original size:17 final size:18
Alignment explanation
Indices: 57097881--57097914 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57097871 ATTTTCAATT
57097881 AAAATATATATTATTTTG
1 AAAATATATATTATTTTG
*
57097899 AAAATA-ATTTTATTTT
1 AAAATATATATTATTTT
57097915 ATTTAGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
AAAATATATATTATTTTG
Done.